<?xml version='1.0'?><rss version="2.0" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:georss="http://www.georss.org/georss" xmlns:atom="http://www.w3.org/2005/Atom" >
<channel>
	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/3013?offset=180</link>
	<atom:link href="https://bioinformaticsonline.com/related/3013?offset=180" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/10457/assistant-professor-bio-informatics-at-health-and-family-welfare-department-medical-education-in-raipur</guid>
  <pubDate>Wed, 07 May 2014 00:08:38 -0500</pubDate>
  <link></link>
  <title><![CDATA[Assistant Professor (Bio-Informatics) at Health and Family Welfare Department (Medical Education) in Raipur]]></title>
  <description><![CDATA[
<p>Advertisement No.05/2014/ Exam/Dated 17/04/2014</p>

<p>No of vacancies: 01</p>

<p>Pay scale:Rs. 15600 – 39100 + 6600/-</p>

<p>Essential Academic Qualifications / Experience : Good academic record as defined by the concerned university with at least 55% marks (or an equivalent grade in a point scale wherever grading system is followed) at the Master's Degree level in a relevant subject from an Indian University, or an equivalent degree from an accredited foreign university.</p>

<p>Besides fulfilling the above qualifications, the candidate must have cleared the National Eligibility Test (NET) conducted by the UGC, CSIR or similar test accredited by the UGC like SLET/ SET.</p>

<p>Notwithstanding anything contained in sub-clauses (a) and (b) to this Clause, candidates, who are, or have been awarded a Ph.D. Degree in accordance with the University Grants Commission (Minimum Standards and Procedure for Award of Ph.D. Degree) Regulations, 2009, shall be exempted from the requirement of the minimum eligibility condition of NET/SLET/SET for recruitment and appointment of Assistant Professor or equivalent positions in Universities/Colleges/Institutions.</p>

<p>NET/SLET/SET shall also not be required for such Masters Programmes in disciplines for which NET/SLET/SET is not conducted.</p>

<p>Apply online: http://www.psc.cg.gov.in/htm/OA_ME2014.html</p>

<p>Last Date for Online Registration: 22/05/2014</p>

<p>For more details: http://www.psc.cg.gov.in/pdf/Advertisement/ADV_ME2014.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/44930/bioinformatics-the-bridge-between-curiosity-and-discovery</guid>
	<pubDate>Mon, 24 Nov 2025 05:16:49 -0600</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/44930/bioinformatics-the-bridge-between-curiosity-and-discovery</link>
	<title><![CDATA[Bioinformatics: The Bridge Between Curiosity and Discovery]]></title>
	<description><![CDATA[<p>In the sprawling universe of modern science, bioinformatics stands as one of the most transformative and empowering fields of our time. It is where biology meets computation, where data becomes meaning, and where curiosity becomes discovery. If you&rsquo;ve stepped into this world&mdash;or are considering it&mdash;here&rsquo;s your reminder: you&rsquo;re part of a revolution.</p><p><strong>Why Bioinformatics Matters More Than Ever</strong></p><p>Every day, our world generates massive amounts of biological data&mdash;from genome sequences to microbiome profiles to real-time pathogen surveillance. Hidden within these datasets are the answers to some of the greatest challenges humanity faces: emerging diseases, antimicrobial resistance, environmental stress, genetic disorders, sustainable agriculture, and more.</p><p>Bioinformatics isn&rsquo;t just a skill.<br />It&rsquo;s the language of the future of biology.</p><p>By mastering it, you give yourself the power to:</p><p>Decode genomes and understand life at its most fundamental level</p><p>Identify patterns no microscope could ever reveal</p><p>Predict disease outbreaks before they occur</p><p>Accelerate drug discovery with computational precision</p><p>Contribute to open-source tools that empower scientists worldwide</p><p>You don&rsquo;t just follow science&mdash;you drive it.</p><p><strong>Every Expert Was Once a Beginner</strong></p><p>Many newcomers feel intimidated. Command-line interfaces. R scripts. Python packages. Next-generation sequencing data. Complex machine learning models.</p><p>But here&rsquo;s the truth: every bioinformatician started exactly where you are now&mdash;curious, unsure, but excited.</p><p>No one writes perfect code on day one.</p><p>No one understands genomics pipelines immediately.</p><p>What makes you a bioinformatician is not perfection, but perseverance.</p><p>When your script throws a cryptic error&hellip;<br />When your data refuses to format&hellip;<br />When your pipeline runs for 6 hours only to crash&hellip;</p><p>Remember: this is part of the journey.<br />Every error teaches you. Every retry strengthens you. Every breakthrough energizes you.</p><p>Bioinformatics Is Not Just a Career&mdash;It&rsquo;s a Mindset</p><p>It&rsquo;s the mindset of:</p><p>Problem-solving.</p><p>Continuous learning.</p><p>Turning chaos into clarity.</p><p>Seeing what others can&rsquo;t.</p><p>Bioinformaticians are detectives of biological complexity. You sit at the intersection of innovation, using tools that can shape public health, medicine, agriculture, and ecology. Few fields give you such direct impact on the world.</p><p><strong>Your Contribution Matters</strong></p><p>As you work on your script, pipeline, genome, or model, remember:</p><p>Somewhere, your analysis might contribute to:</p><p>A new therapy</p><p>A faster diagnostic test</p><p>A better understanding of a pathogen</p><p>A more resilient crop</p><p>An open-source dataset that helps thousands</p><p>A discovery that rewrites textbooks</p><p>Your code may be small, but its ripple effect is powerful.</p><p>The Future Is Bioinformatics&mdash;And You Are Part of It</p><p>The world is shifting. Wet labs are integrating AI. Hospitals rely on genomic insights. Farmers use gene-level predictions. Governments monitor disease in real time. Students launch pipelines that become global tools.</p><p>This is a golden era&mdash;and you are not late.<br />You are exactly where you need to be.</p><p>Keep Pushing. Keep Learning. Keep Discovering.</p><p>Bioinformatics is a journey filled with challenges, but also with unmatched rewards.</p><p>So the next time you feel stuck, frustrated, or overwhelmed, remember:<br />You&rsquo;re building the science of tomorrow.</p><p>Be proud. Stay curious. Keep going.<br />Your work matters more than you think.</p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/10659/gps-dna-tracking-university-of-sheffield</guid>
	<pubDate>Sat, 10 May 2014 04:33:28 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/10659/gps-dna-tracking-university-of-sheffield</link>
	<title><![CDATA[GPS DNA tracking - University of Sheffield]]></title>
	<description><![CDATA[<iframe width="" height="" src="https://www.youtube-nocookie.com/embed/Aap-s1kle4Q" frameborder="0" allowfullscreen></iframe>University of Sheffield geneticist and bioinformatics expert Dr Eran Elhaik demonstrates the power of his new DNA research, which allows people to discover their genetic homeland from 1000 years ago. Find out more about our biological research here http://www.sheffield.ac.uk/aps]]></description>
	
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/36497/installing-python-numpy</guid>
	<pubDate>Mon, 07 May 2018 04:31:25 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/36497/installing-python-numpy</link>
	<title><![CDATA[Installing  python-numpy !]]></title>
	<description><![CDATA[<p>$ sudo apt-get install python-numpy python-scipy python-matplotlib ipython ipython-notebook python-pandas python-sympy python-nose<br />[sudo] password for urbe: <br />Reading package lists... Done<br />Building dependency tree <br />Reading state information... Done<br />The following packages were automatically installed and are no longer required:<br /> bridge-utils containerd linux-headers-4.4.0-116 linux-headers-4.4.0-116-generic linux-headers-4.4.0-21 linux-headers-4.4.0-21-generic<br /> linux-image-4.4.0-116-generic linux-image-4.4.0-21-generic linux-image-extra-4.4.0-116-generic linux-image-extra-4.4.0-21-generic<br /> linux-signed-image-4.4.0-116-generic runc ubuntu-fan<br />Use 'sudo apt autoremove' to remove them.<br />The following additional packages will be installed:<br /> blt fonts-lyx fonts-mathjax ipython-notebook-common isympy libaec0 libamd2.4.1 libdsdp-5.8gf libglpk36 libgsl2 libhdf5-10 libjs-highlight<br /> libjs-highlight.js libjs-jquery-ui libjs-marked libjs-mathjax libjs-underscore libsz2 python-antlr python-bs4 python-chardet python-cvxopt<br /> python-cycler python-dateutil python-decorator python-glade2 python-gmpy python-html5lib python-imaging python-jdcal python-jinja2 python-joblib<br /> python-lxml python-markupsafe python-matplotlib-data python-mpmath python-numexpr python-openpyxl python-pandas-lib python-patsy python-pexpect<br /> python-pil python-ptyprocess python-py python-pycurl python-pyglet python-pymysql python-pyparsing python-pytest python-simplegeneric<br /> python-simplejson python-statsmodels python-statsmodels-lib python-sympy-doc python-tables python-tables-data python-tables-lib python-tk<br /> python-tornado python-tz python-xlrd python-xlwt python-zmq tk8.6-blt2.5 ttf-bitstream-vera<br />Suggested packages:<br /> blt-demo ipython-doc ipython-qtconsole python-pygments nodejs pandoc libiodbc2-dev libmysqlclient-dev gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info<br /> | gsl-ref-html libjs-jquery-ui-docs fonts-mathjax-extras libjs-mathjax-doc python-gtk2-doc python-genshi python-jinja2-doc python-lxml-dbg<br /> python-lxml-doc ffmpeg inkscape python-cairocffi python-configobj python-excelerator python-matplotlib-doc python-qt4 python-sip python-traits<br /> python-wxgtk3.0 ttf-staypuft python-gmpy2 python-mpmath-doc python-coverage python-nose-doc python-numpy-dbg python-numpy-doc python-pandas-doc<br /> python-patsy-doc python-pexpect-doc python-pil-doc python-pil-dbg subversion python-pytest-xdist libcurl4-gnutls-dev python-pycurl-dbg<br /> python-pycurl-doc python-pymysql-doc python-mock python-scipy-doc python-statsmodels-doc python-tables-doc python-netcdf vitables tix<br /> python-tk-dbg<br />The following NEW packages will be installed:<br /> blt fonts-lyx fonts-mathjax ipython ipython-notebook ipython-notebook-common isympy libaec0 libamd2.4.1 libdsdp-5.8gf libglpk36 libgsl2<br /> libhdf5-10 libjs-highlight libjs-highlight.js libjs-jquery-ui libjs-marked libjs-mathjax libjs-underscore libsz2 python-antlr python-bs4<br /> python-chardet python-cvxopt python-cycler python-dateutil python-decorator python-glade2 python-gmpy python-html5lib python-imaging<br /> python-jdcal python-jinja2 python-joblib python-lxml python-markupsafe python-matplotlib python-matplotlib-data python-mpmath python-nose<br /> python-numexpr python-numpy python-openpyxl python-pandas python-pandas-lib python-patsy python-pexpect python-pil python-ptyprocess python-py<br /> python-pycurl python-pyglet python-pymysql python-pyparsing python-pytest python-scipy python-simplegeneric python-simplejson python-statsmodels<br /> python-statsmodels-lib python-sympy python-sympy-doc python-tables python-tables-data python-tables-lib python-tk python-tornado python-tz<br /> python-xlrd python-xlwt python-zmq tk8.6-blt2.5 ttf-bitstream-vera<br />0 upgraded, 73 newly installed, 0 to remove and 35 not upgraded.<br />Need to get 49,5 MB of archives.<br />After this operation, 271 MB of additional disk space will be used.<br />Do you want to continue? [Y/n] Y<br />Get:1 http://be.archive.ubuntu.com/ubuntu xenial-updates/main amd64 python-pymysql all 0.7.2-1ubuntu1 [56,4 kB]<br />Get:2 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-3 [574 kB]<br />Get:3 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 blt amd64 2.5.3+dfsg-3 [4.852 B]<br />Get:4 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 fonts-lyx all 2.1.4-2 [161 kB]<br />Get:5 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 fonts-mathjax all 2.6.1-1 [960 kB]<br />Get:6 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-decorator all 4.0.6-1 [9.326 B]<br />Get:7 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-ptyprocess all 0.5-1 [12,9 kB]<br />Get:8 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-pexpect all 4.0.1-1 [40,5 kB]<br />Get:9 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-simplegeneric all 0.8.1-1 [11,5 kB]<br />Get:10 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 ipython all 2.4.1-1 [610 kB]<br />Get:11 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libjs-highlight.js all 8.2+ds-4build1 [151 kB]<br />Get:12 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libjs-highlight all 8.2+ds-4build1 [7.032 B]<br />Get:13 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libjs-jquery-ui all 1.10.1+dfsg-1 [458 kB]<br />Get:14 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libjs-marked all 0.3.2+dfsg-1 [12,7 kB]<br />Get:15 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libjs-mathjax all 2.6.1-1 [5.601 kB]<br />Get:16 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 libjs-underscore all 1.7.0~dfsg-1ubuntu1 [46,7 kB]<br />Get:17 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 ipython-notebook-common all 2.4.1-1 [712 kB]<br />Get:18 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-markupsafe amd64 0.23-2build2 [15,5 kB]<br />Get:19 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-jinja2 all 2.8-1 [109 kB]<br />Get:20 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-pycurl amd64 7.43.0-1ubuntu1 [43,3 kB]<br />Get:21 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-tornado amd64 4.2.1-1ubuntu3 [273 kB]<br />Get:22 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-zmq amd64 15.2.0-0ubuntu4 [200 kB]<br />Get:23 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 ipython-notebook all 2.4.1-1 [48,4 kB]<br />Get:24 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 isympy all 0.7.6.1-1 [82,5 kB]<br />Get:25 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libaec0 amd64 0.3.2-1 [18,0 kB]<br />Get:26 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 libamd2.4.1 amd64 1:4.4.6-1 [21,3 kB]<br />Get:27 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libglpk36 amd64 4.57-1build3 [386 kB]<br />Get:28 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 libgsl2 amd64 2.1+dfsg-2 [840 kB]<br />Get:29 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libsz2 amd64 0.3.2-1 [5.048 B]<br />Get:30 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libhdf5-10 amd64 1.8.16+docs-4ubuntu1 [995 kB]<br />Get:31 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-antlr all 2.7.7+dfsg-6ubuntu1 [19,0 kB]<br />Get:32 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-bs4 all 4.4.1-1 [64,2 kB]<br />Get:33 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-chardet all 2.3.0-2 [96,3 kB]<br />Get:34 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 libdsdp-5.8gf amd64 5.8-9.1ubuntu2 [192 kB]<br />Get:35 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-cvxopt amd64 1.1.4-1.4 [1.344 kB]<br />Get:36 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-cycler all 0.9.0-1 [5.426 B]<br />Get:37 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-dateutil all 2.4.2-1 [42,5 kB]<br />Get:38 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-glade2 amd64 2.24.0-4ubuntu1 [9.078 B]<br />Get:39 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-gmpy amd64 1.17-1 [91,1 kB]<br />Get:40 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-html5lib all 0.999-4 [83,1 kB]<br />Get:41 http://be.archive.ubuntu.com/ubuntu xenial-updates/main amd64 python-pil amd64 3.1.2-0ubuntu1.1 [312 kB]<br />Get:42 http://be.archive.ubuntu.com/ubuntu xenial-updates/universe amd64 python-imaging all 3.1.2-0ubuntu1.1 [4.596 B]<br />Get:43 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-jdcal all 1.0-1build1 [7.702 B]<br />Get:44 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-joblib all 0.9.4-1 [74,6 kB]<br />Get:45 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-lxml amd64 3.5.0-1build1 [819 kB]<br />Get:46 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 ttf-bitstream-vera all 1.10-8 [352 kB]<br />Get:47 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-matplotlib-data all 1.5.1-1ubuntu1 [2.414 kB]<br />Get:48 http://be.archive.ubuntu.com/ubuntu xenial-updates/main amd64 python-pyparsing all 2.0.3+dfsg1-1ubuntu0.1 [35,4 kB]<br />Get:49 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-tz all 2014.10~dfsg1-0ubuntu2 [31,5 kB]<br />Get:50 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-numpy amd64 1:1.11.0-1ubuntu1 [1.763 kB]<br />Get:51 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-matplotlib amd64 1.5.1-1ubuntu1 [3.888 kB]<br />Get:52 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-mpmath all 0.19-3 [387 kB]<br />Get:53 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-nose all 1.3.7-1 [116 kB]<br />Get:54 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-numexpr amd64 2.4.3-1ubuntu1 [129 kB]<br />Get:55 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-openpyxl all 2.3.0-1 [193 kB]<br />Get:56 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-pandas-lib amd64 0.17.1-3ubuntu2 [1.538 kB]<br />Get:57 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-pandas all 0.17.1-3ubuntu2 [2.386 kB]<br />Get:58 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-patsy all 0.4.1-2 [169 kB]<br />Get:59 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-py all 1.4.31-1 [62,5 kB]<br />Get:60 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-pyglet all 1.1.4.dfsg-3 [726 kB]<br />Get:61 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-pytest all 2.8.7-4 [119 kB]<br />Get:62 http://be.archive.ubuntu.com/ubuntu xenial/main amd64 python-simplejson amd64 3.8.1-1ubuntu2 [60,4 kB]<br />Get:63 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-sympy all 0.7.6.1-1 [2.252 kB]<br />Get:64 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-sympy-doc all 0.7.6.1-1 [4.774 kB]<br />Get:65 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-tables-lib amd64 3.2.2-2 [353 kB]<br />Get:66 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-tables-data all 3.2.2-2 [45,3 kB]<br />Get:67 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-tables all 3.2.2-2 [335 kB]<br />Get:68 http://be.archive.ubuntu.com/ubuntu xenial-updates/main amd64 python-tk amd64 2.7.12-1~16.04 [26,3 kB]<br />Get:69 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-xlrd all 0.9.4-1 [107 kB]<br />Get:70 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-xlwt all 0.7.5+debian1-1 [83,5 kB]<br />Get:71 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-scipy amd64 0.17.0-1 [8.733 kB]<br />Get:72 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-statsmodels-lib amd64 0.6.1-4 [173 kB]<br />Get:73 http://be.archive.ubuntu.com/ubuntu xenial/universe amd64 python-statsmodels all 0.6.1-4 [2.581 kB]<br />Fetched 49,5 MB in 0s (52,8 MB/s) <br />Extracting templates from packages: 100%<br />Selecting previously unselected package python-pymysql.<br />(Reading database ... 435155 files and directories currently installed.)<br />Preparing to unpack .../python-pymysql_0.7.2-1ubuntu1_all.deb ...<br />Unpacking python-pymysql (0.7.2-1ubuntu1) ...<br />Selecting previously unselected package tk8.6-blt2.5.<br />Preparing to unpack .../tk8.6-blt2.5_2.5.3+dfsg-3_amd64.deb ...<br />Unpacking tk8.6-blt2.5 (2.5.3+dfsg-3) ...<br />Selecting previously unselected package blt.<br />Preparing to unpack .../blt_2.5.3+dfsg-3_amd64.deb ...<br />Unpacking blt (2.5.3+dfsg-3) ...<br />Selecting previously unselected package fonts-lyx.<br />Preparing to unpack .../fonts-lyx_2.1.4-2_all.deb ...<br />Unpacking fonts-lyx (2.1.4-2) ...<br />Selecting previously unselected package fonts-mathjax.<br />Preparing to unpack .../fonts-mathjax_2.6.1-1_all.deb ...<br />Unpacking fonts-mathjax (2.6.1-1) ...<br />Selecting previously unselected package python-decorator.<br />Preparing to unpack .../python-decorator_4.0.6-1_all.deb ...<br />Unpacking python-decorator (4.0.6-1) ...<br />Selecting previously unselected package python-ptyprocess.<br />Preparing to unpack .../python-ptyprocess_0.5-1_all.deb ...<br />Unpacking python-ptyprocess (0.5-1) ...<br />Selecting previously unselected package python-pexpect.<br />Preparing to unpack .../python-pexpect_4.0.1-1_all.deb ...<br />Unpacking python-pexpect (4.0.1-1) ...<br />Selecting previously unselected package python-simplegeneric.<br />Preparing to unpack .../python-simplegeneric_0.8.1-1_all.deb ...<br />Unpacking python-simplegeneric (0.8.1-1) ...<br />Selecting previously unselected package ipython.<br />Preparing to unpack .../ipython_2.4.1-1_all.deb ...<br />Unpacking ipython (2.4.1-1) ...<br />Selecting previously unselected package libjs-highlight.js.<br />Preparing to unpack .../libjs-highlight.js_8.2+ds-4build1_all.deb ...<br />Unpacking libjs-highlight.js (8.2+ds-4build1) ...<br />Selecting previously unselected package libjs-highlight.<br />Preparing to unpack .../libjs-highlight_8.2+ds-4build1_all.deb ...<br />Unpacking libjs-highlight (8.2+ds-4build1) ...<br />Selecting previously unselected package libjs-jquery-ui.<br />Preparing to unpack .../libjs-jquery-ui_1.10.1+dfsg-1_all.deb ...<br />Unpacking libjs-jquery-ui (1.10.1+dfsg-1) ...<br />Selecting previously unselected package libjs-marked.<br />Preparing to unpack .../libjs-marked_0.3.2+dfsg-1_all.deb ...<br />Unpacking libjs-marked (0.3.2+dfsg-1) ...<br />Selecting previously unselected package libjs-mathjax.<br />Preparing to unpack .../libjs-mathjax_2.6.1-1_all.deb ...<br />Unpacking libjs-mathjax (2.6.1-1) ...<br />Selecting previously unselected package libjs-underscore.<br />Preparing to unpack .../libjs-underscore_1.7.0~dfsg-1ubuntu1_all.deb ...<br />Unpacking libjs-underscore (1.7.0~dfsg-1ubuntu1) ...<br />Selecting previously unselected package ipython-notebook-common.<br />Preparing to unpack .../ipython-notebook-common_2.4.1-1_all.deb ...<br />Unpacking ipython-notebook-common (2.4.1-1) ...<br />Selecting previously unselected package python-markupsafe.<br />Preparing to unpack .../python-markupsafe_0.23-2build2_amd64.deb ...<br />Unpacking python-markupsafe (0.23-2build2) ...<br />Selecting previously unselected package python-jinja2.<br />Preparing to unpack .../python-jinja2_2.8-1_all.deb ...<br />Unpacking python-jinja2 (2.8-1) ...<br />Selecting previously unselected package python-pycurl.<br />Preparing to unpack .../python-pycurl_7.43.0-1ubuntu1_amd64.deb ...<br />Unpacking python-pycurl (7.43.0-1ubuntu1) ...<br />Selecting previously unselected package python-tornado.<br />Preparing to unpack .../python-tornado_4.2.1-1ubuntu3_amd64.deb ...<br />Unpacking python-tornado (4.2.1-1ubuntu3) ...<br />Selecting previously unselected package python-zmq.<br />Preparing to unpack .../python-zmq_15.2.0-0ubuntu4_amd64.deb ...<br />Unpacking python-zmq (15.2.0-0ubuntu4) ...<br />Selecting previously unselected package ipython-notebook.<br />Preparing to unpack .../ipython-notebook_2.4.1-1_all.deb ...<br />Unpacking ipython-notebook (2.4.1-1) ...<br />Selecting previously unselected package isympy.<br />Preparing to unpack .../isympy_0.7.6.1-1_all.deb ...<br />Unpacking isympy (0.7.6.1-1) ...<br />Selecting previously unselected package libaec0:amd64.<br />Preparing to unpack .../libaec0_0.3.2-1_amd64.deb ...<br />Unpacking libaec0:amd64 (0.3.2-1) ...<br />Selecting previously unselected package libamd2.4.1:amd64.<br />Preparing to unpack .../libamd2.4.1_1%3a4.4.6-1_amd64.deb ...<br />Unpacking libamd2.4.1:amd64 (1:4.4.6-1) ...<br />Selecting previously unselected package libglpk36:amd64.<br />Preparing to unpack .../libglpk36_4.57-1build3_amd64.deb ...<br />Unpacking libglpk36:amd64 (4.57-1build3) ...<br />Selecting previously unselected package libgsl2:amd64.<br />Preparing to unpack .../libgsl2_2.1+dfsg-2_amd64.deb ...<br />Unpacking libgsl2:amd64 (2.1+dfsg-2) ...<br />Selecting previously unselected package libsz2:amd64.<br />Preparing to unpack .../libsz2_0.3.2-1_amd64.deb ...<br />Unpacking libsz2:amd64 (0.3.2-1) ...<br />Selecting previously unselected package libhdf5-10:amd64.<br />Preparing to unpack .../libhdf5-10_1.8.16+docs-4ubuntu1_amd64.deb ...<br />Unpacking libhdf5-10:amd64 (1.8.16+docs-4ubuntu1) ...<br />Selecting previously unselected package python-antlr.<br />Preparing to unpack .../python-antlr_2.7.7+dfsg-6ubuntu1_all.deb ...<br />Unpacking python-antlr (2.7.7+dfsg-6ubuntu1) ...<br />Selecting previously unselected package python-bs4.<br />Preparing to unpack .../python-bs4_4.4.1-1_all.deb ...<br />Unpacking python-bs4 (4.4.1-1) ...<br />Selecting previously unselected package python-chardet.<br />Preparing to unpack .../python-chardet_2.3.0-2_all.deb ...<br />Unpacking python-chardet (2.3.0-2) ...<br />Selecting previously unselected package libdsdp-5.8gf.<br />Preparing to unpack .../libdsdp-5.8gf_5.8-9.1ubuntu2_amd64.deb ...<br />Unpacking libdsdp-5.8gf (5.8-9.1ubuntu2) ...<br />Selecting previously unselected package python-cvxopt.<br />Preparing to unpack .../python-cvxopt_1.1.4-1.4_amd64.deb ...<br />Unpacking python-cvxopt (1.1.4-1.4) ...<br />Selecting previously unselected package python-cycler.<br />Preparing to unpack .../python-cycler_0.9.0-1_all.deb ...<br />Unpacking python-cycler (0.9.0-1) ...<br />Selecting previously unselected package python-dateutil.<br />Preparing to unpack .../python-dateutil_2.4.2-1_all.deb ...<br />Unpacking python-dateutil (2.4.2-1) ...<br />Selecting previously unselected package python-glade2.<br />Preparing to unpack .../python-glade2_2.24.0-4ubuntu1_amd64.deb ...<br />Unpacking python-glade2 (2.24.0-4ubuntu1) ...<br />Selecting previously unselected package python-gmpy.<br />Preparing to unpack .../python-gmpy_1.17-1_amd64.deb ...<br />Unpacking python-gmpy (1.17-1) ...<br />Selecting previously unselected package python-html5lib.<br />Preparing to unpack .../python-html5lib_0.999-4_all.deb ...<br />Unpacking python-html5lib (0.999-4) ...<br />Selecting previously unselected package python-pil:amd64.<br />Preparing to unpack .../python-pil_3.1.2-0ubuntu1.1_amd64.deb ...<br />Unpacking python-pil:amd64 (3.1.2-0ubuntu1.1) ...<br />Selecting previously unselected package python-imaging.<br />Preparing to unpack .../python-imaging_3.1.2-0ubuntu1.1_all.deb ...<br />Unpacking python-imaging (3.1.2-0ubuntu1.1) ...<br />Selecting previously unselected package python-jdcal.<br />Preparing to unpack .../python-jdcal_1.0-1build1_all.deb ...<br />Unpacking python-jdcal (1.0-1build1) ...<br />Selecting previously unselected package python-joblib.<br />Preparing to unpack .../python-joblib_0.9.4-1_all.deb ...<br />Unpacking python-joblib (0.9.4-1) ...<br />Selecting previously unselected package python-lxml.<br />Preparing to unpack .../python-lxml_3.5.0-1build1_amd64.deb ...<br />Unpacking python-lxml (3.5.0-1build1) ...<br />Selecting previously unselected package ttf-bitstream-vera.<br />Preparing to unpack .../ttf-bitstream-vera_1.10-8_all.deb ...<br />Unpacking ttf-bitstream-vera (1.10-8) ...<br />Selecting previously unselected package python-matplotlib-data.<br />Preparing to unpack .../python-matplotlib-data_1.5.1-1ubuntu1_all.deb ...<br />Unpacking python-matplotlib-data (1.5.1-1ubuntu1) ...<br />Selecting previously unselected package python-pyparsing.<br />Preparing to unpack .../python-pyparsing_2.0.3+dfsg1-1ubuntu0.1_all.deb ...<br />Unpacking python-pyparsing (2.0.3+dfsg1-1ubuntu0.1) ...<br />Selecting previously unselected package python-tz.<br />Preparing to unpack .../python-tz_2014.10~dfsg1-0ubuntu2_all.deb ...<br />Unpacking python-tz (2014.10~dfsg1-0ubuntu2) ...<br />Selecting previously unselected package python-numpy.<br />Preparing to unpack .../python-numpy_1%3a1.11.0-1ubuntu1_amd64.deb ...<br />Unpacking python-numpy (1:1.11.0-1ubuntu1) ...<br />Selecting previously unselected package python-matplotlib.<br />Preparing to unpack .../python-matplotlib_1.5.1-1ubuntu1_amd64.deb ...<br />Unpacking python-matplotlib (1.5.1-1ubuntu1) ...<br />Selecting previously unselected package python-mpmath.<br />Preparing to unpack .../python-mpmath_0.19-3_all.deb ...<br />Unpacking python-mpmath (0.19-3) ...<br />Selecting previously unselected package python-nose.<br />Preparing to unpack .../python-nose_1.3.7-1_all.deb ...<br />Unpacking python-nose (1.3.7-1) ...<br />Selecting previously unselected package python-numexpr.<br />Preparing to unpack .../python-numexpr_2.4.3-1ubuntu1_amd64.deb ...<br />Unpacking python-numexpr (2.4.3-1ubuntu1) ...<br />Selecting previously unselected package python-openpyxl.<br />Preparing to unpack .../python-openpyxl_2.3.0-1_all.deb ...<br />Unpacking python-openpyxl (2.3.0-1) ...<br />Selecting previously unselected package python-pandas-lib.<br />Preparing to unpack .../python-pandas-lib_0.17.1-3ubuntu2_amd64.deb ...<br />Unpacking python-pandas-lib (0.17.1-3ubuntu2) ...<br />Selecting previously unselected package python-pandas.<br />Preparing to unpack .../python-pandas_0.17.1-3ubuntu2_all.deb ...<br />Unpacking python-pandas (0.17.1-3ubuntu2) ...<br />Selecting previously unselected package python-patsy.<br />Preparing to unpack .../python-patsy_0.4.1-2_all.deb ...<br />Unpacking python-patsy (0.4.1-2) ...<br />Selecting previously unselected package python-py.<br />Preparing to unpack .../python-py_1.4.31-1_all.deb ...<br />Unpacking python-py (1.4.31-1) ...<br />Selecting previously unselected package python-pyglet.<br />Preparing to unpack .../python-pyglet_1.1.4.dfsg-3_all.deb ...<br />Unpacking python-pyglet (1.1.4.dfsg-3) ...<br />Selecting previously unselected package python-pytest.<br />Preparing to unpack .../python-pytest_2.8.7-4_all.deb ...<br />Unpacking python-pytest (2.8.7-4) ...<br />Selecting previously unselected package python-simplejson.<br />Preparing to unpack .../python-simplejson_3.8.1-1ubuntu2_amd64.deb ...<br />Unpacking python-simplejson (3.8.1-1ubuntu2) ...<br />Selecting previously unselected package python-sympy.<br />Preparing to unpack .../python-sympy_0.7.6.1-1_all.deb ...<br />Unpacking python-sympy (0.7.6.1-1) ...<br />Selecting previously unselected package python-sympy-doc.<br />Preparing to unpack .../python-sympy-doc_0.7.6.1-1_all.deb ...<br />Unpacking python-sympy-doc (0.7.6.1-1) ...<br />Selecting previously unselected package python-tables-lib.<br />Preparing to unpack .../python-tables-lib_3.2.2-2_amd64.deb ...<br />Unpacking python-tables-lib (3.2.2-2) ...<br />Selecting previously unselected package python-tables-data.<br />Preparing to unpack .../python-tables-data_3.2.2-2_all.deb ...<br />Unpacking python-tables-data (3.2.2-2) ...<br />Selecting previously unselected package python-tables.<br />Preparing to unpack .../python-tables_3.2.2-2_all.deb ...<br />Unpacking python-tables (3.2.2-2) ...<br />Selecting previously unselected package python-tk.<br />Preparing to unpack .../python-tk_2.7.12-1~16.04_amd64.deb ...<br />Unpacking python-tk (2.7.12-1~16.04) ...<br />Selecting previously unselected package python-xlrd.<br />Preparing to unpack .../python-xlrd_0.9.4-1_all.deb ...<br />Unpacking python-xlrd (0.9.4-1) ...<br />Selecting previously unselected package python-xlwt.<br />Preparing to unpack .../python-xlwt_0.7.5+debian1-1_all.deb ...<br />Unpacking python-xlwt (0.7.5+debian1-1) ...<br />Selecting previously unselected package python-scipy.<br />Preparing to unpack .../python-scipy_0.17.0-1_amd64.deb ...<br />Unpacking python-scipy (0.17.0-1) ...<br />Selecting previously unselected package python-statsmodels-lib.<br />Preparing to unpack .../python-statsmodels-lib_0.6.1-4_amd64.deb ...<br />Unpacking python-statsmodels-lib (0.6.1-4) ...<br />Selecting previously unselected package python-statsmodels.<br />Preparing to unpack .../python-statsmodels_0.6.1-4_all.deb ...<br />Unpacking python-statsmodels (0.6.1-4) ...<br />Processing triggers for libc-bin (2.23-0ubuntu10) ...<br />Processing triggers for fontconfig (2.11.94-0ubuntu1.1) ...<br />Processing triggers for man-db (2.7.5-1) ...<br />Processing triggers for hicolor-icon-theme (0.15-0ubuntu1) ...<br />Processing triggers for gnome-menus (3.13.3-6ubuntu3.1) ...<br />Processing triggers for desktop-file-utils (0.22-1ubuntu5.1) ...<br />Processing triggers for mime-support (3.59ubuntu1) ...<br />Processing triggers for doc-base (0.10.7) ...<br />Processing 5 added doc-base files...<br />Setting up python-pymysql (0.7.2-1ubuntu1) ...<br />Setting up tk8.6-blt2.5 (2.5.3+dfsg-3) ...<br />Setting up blt (2.5.3+dfsg-3) ...<br />Setting up fonts-lyx (2.1.4-2) ...<br />Setting up fonts-mathjax (2.6.1-1) ...<br />Setting up python-decorator (4.0.6-1) ...<br />Setting up python-ptyprocess (0.5-1) ...<br />Setting up python-pexpect (4.0.1-1) ...<br />Setting up python-simplegeneric (0.8.1-1) ...<br />Setting up ipython (2.4.1-1) ...<br />Setting up libjs-highlight.js (8.2+ds-4build1) ...<br />Setting up libjs-highlight (8.2+ds-4build1) ...<br />Setting up libjs-jquery-ui (1.10.1+dfsg-1) ...<br />Setting up libjs-marked (0.3.2+dfsg-1) ...<br />Setting up libjs-mathjax (2.6.1-1) ...<br />Setting up libjs-underscore (1.7.0~dfsg-1ubuntu1) ...<br />Setting up ipython-notebook-common (2.4.1-1) ...<br />Setting up python-markupsafe (0.23-2build2) ...<br />Setting up python-jinja2 (2.8-1) ...<br />Setting up python-pycurl (7.43.0-1ubuntu1) ...<br />Setting up python-tornado (4.2.1-1ubuntu3) ...<br />Setting up python-zmq (15.2.0-0ubuntu4) ...<br />Setting up ipython-notebook (2.4.1-1) ...<br />Setting up isympy (0.7.6.1-1) ...<br />Setting up libaec0:amd64 (0.3.2-1) ...<br />Setting up libamd2.4.1:amd64 (1:4.4.6-1) ...<br />Setting up libglpk36:amd64 (4.57-1build3) ...<br />Setting up libgsl2:amd64 (2.1+dfsg-2) ...<br />Setting up libsz2:amd64 (0.3.2-1) ...<br />Setting up libhdf5-10:amd64 (1.8.16+docs-4ubuntu1) ...<br />Setting up python-antlr (2.7.7+dfsg-6ubuntu1) ...<br />Setting up python-bs4 (4.4.1-1) ...<br />Setting up python-chardet (2.3.0-2) ...<br />Setting up libdsdp-5.8gf (5.8-9.1ubuntu2) ...<br />Setting up python-cvxopt (1.1.4-1.4) ...<br />Setting up python-cycler (0.9.0-1) ...<br />Setting up python-dateutil (2.4.2-1) ...<br />Setting up python-glade2 (2.24.0-4ubuntu1) ...<br />Setting up python-gmpy (1.17-1) ...<br />Setting up python-html5lib (0.999-4) ...<br />Setting up python-pil:amd64 (3.1.2-0ubuntu1.1) ...<br />Setting up python-imaging (3.1.2-0ubuntu1.1) ...<br />Setting up python-jdcal (1.0-1build1) ...<br />Setting up python-joblib (0.9.4-1) ...<br />Setting up python-lxml (3.5.0-1build1) ...<br />Setting up ttf-bitstream-vera (1.10-8) ...<br />Setting up python-matplotlib-data (1.5.1-1ubuntu1) ...<br />Setting up python-pyparsing (2.0.3+dfsg1-1ubuntu0.1) ...<br />Setting up python-tz (2014.10~dfsg1-0ubuntu2) ...<br />Setting up python-numpy (1:1.11.0-1ubuntu1) ...<br />Setting up python-matplotlib (1.5.1-1ubuntu1) ...<br />Setting up python-mpmath (0.19-3) ...<br />Setting up python-nose (1.3.7-1) ...<br />Setting up python-numexpr (2.4.3-1ubuntu1) ...<br />Setting up python-openpyxl (2.3.0-1) ...<br />Setting up python-pandas-lib (0.17.1-3ubuntu2) ...<br />Setting up python-pandas (0.17.1-3ubuntu2) ...<br />Setting up python-patsy (0.4.1-2) ...<br />Setting up python-py (1.4.31-1) ...<br />Setting up python-pyglet (1.1.4.dfsg-3) ...<br />Setting up python-pytest (2.8.7-4) ...<br />Setting up python-simplejson (3.8.1-1ubuntu2) ...<br />Setting up python-sympy (0.7.6.1-1) ...<br />Setting up python-sympy-doc (0.7.6.1-1) ...<br />Setting up python-tables-lib (3.2.2-2) ...<br />Setting up python-tables-data (3.2.2-2) ...<br />Setting up python-tables (3.2.2-2) ...<br />Setting up python-tk (2.7.12-1~16.04) ...<br />Setting up python-xlrd (0.9.4-1) ...<br />Setting up python-xlwt (0.7.5+debian1-1) ...<br />Setting up python-scipy (0.17.0-1) ...<br />Setting up python-statsmodels-lib (0.6.1-4) ...<br />Setting up python-statsmodels (0.6.1-4) ...<br />Processing triggers for libc-bin (2.23-0ubuntu10) ...<br />➜ redundans git:(master) ✗ python2 redundans.py -v -i test/*_?.fq.gz -f test/contigs.fa -o test/run1<br />Options: Namespace(fasta='test/contigs.fa', fastq=['test/5000_1.fq.gz', 'test/5000_2.fq.gz', 'test/600_1.fq.gz', 'test/600_2.fq.gz'], identity=0.51, iters=2, joins=5, limit=0.2, linkratio=0.7, log=', mode 'w' at 0x7f85d1de31e0&gt;, longreads=[], mapq=10, mem=16, minLength=200, nocleaning=True, nogapclosing=True, norearrangements=False, noreduction=True, noscaffolding=True, outdir='test/run1', overlap=0.8, reference='', resume=False, threads=4, tmp='/tmp', usebwa=False, verbose=True)</p><p>##################################################<br />[Mon May 7 11:29:18 2018] Reduction...<br />#file name genome size contigs heterozygous size [%] heterozygous contigs [%] identity [%] possible joins homozygous size [%] homozygous contigs [%]<br />/usr/lib/python2.7/dist-packages/matplotlib/font_manager.py:273: UserWarning: Matplotlib is building the font cache using fc-list. This may take a moment.<br /> warnings.warn('Matplotlib is building the font cache using fc-list. This may take a moment.')<br />test/run1/contigs.fa 163897 245 66377 40.50 221 90.20 94.854 0 97520 59.50 24 9.80</p><p>##################################################<br />[Mon May 7 11:29:29 2018] Estimating parameters of libraries...<br /> Aligning 19504 mates per library...<br />Insert size statistics Mates orientation stats<br />FastQ files read length median mean stdev FF FR RF RR<br />test/5000_1.fq.gz test/5000_2.fq.gz 50 4998 4990.20 721.47 0 4674 0 0<br />test/600_1.fq.gz test/600_2.fq.gz 100 599 598.63 47.68 0 10000 0 0</p><p>##################################################<br />[Mon May 7 11:29:29 2018] Scaffolding...<br /> iteration 1.1: test/run1/contigs.reduced.fa 24 97520 39.355 17 94157 7321 2195 0 29603<br /> 19505 pairs. 17302 passed filtering [88.71%]. 1627 in different contigs [8.34%].<br /> 1526 pairs. 558 in different contigs [36.57%].<br /> iteration 1.2: test/run1/_sspace.1.1.fa 3 97626 39.344 3 97626 87536 6063 821 87536<br /> 19505 pairs. 17607 passed filtering [90.27%]. 182 in different contigs [0.93%].<br /> 1077 pairs. 124 in different contigs [11.51%].<br /> iteration 2.1: test/run1/_sspace.1.2.fa 3 97626 39.344 3 97626 87536 6063 821 87536<br /> 19505 pairs. 15112 passed filtering [77.48%]. 1295 in different contigs [6.64%].<br /> 3417 pairs. 396 in different contigs [11.59%].<br /> iteration 2.2: test/run1/_sspace.2.1.fa 1 99133 39.344 1 99133 99133 99133 2328 99133<br /> 19505 pairs. 15152 passed filtering [77.68%]. 0 in different contigs [0.00%].<br /> 3398 pairs. 0 in different contigs [0.00%].</p><p>##################################################<br />[Mon May 7 11:29:34 2018] Gap closing...<br /> iteration 1.1: test/run1/scaffolds.fa 1 99133 39.344 1 99133 99133 99133 2328 99133</p><p>##################################################<br />[Mon May 7 11:29:35 2018] Final reduction...<br />#file name genome size contigs heterozygous size [%] heterozygous contigs [%] identity [%] possible joins homozygous size [%] homozygous contigs [%]<br />[WARNING] Nothing reduced!<br />test/run1/scaffolds.filled.fa 99390 1 0 0.00 0 0.00 0.000 0 99390 100.00 1 100.00</p><p>##################################################<br />[Mon May 7 11:29:35 2018] Reporting statistics...<br />#fname contigs bases GC [%] contigs &gt;1kb bases in contigs &gt;1kb N50 N90 Ns longest<br />test/contigs.fa 245 163897 40.298 24 117391 3975 233 0 29603<br />test/run1/contigs.fa 245 163897 40.298 24 117391 3975 233 0 29603<br />test/run1/contigs.reduced.fa 24 97520 39.355 17 94157 7321 2195 0 29603<br />test/run1/_sspace.1.1.fa 3 97626 39.344 3 97626 87536 6063 821 87536<br />test/run1/_sspace.1.2.fa 3 97626 39.344 3 97626 87536 6063 821 87536<br />test/run1/_sspace.2.1.fa 1 99133 39.344 1 99133 99133 99133 2328 99133<br />test/run1/_sspace.2.2.fa 1 99133 39.344 1 99133 99133 99133 2328 99133<br />test/run1/scaffolds.fa 1 99133 39.344 1 99133 99133 99133 2328 99133<br />test/run1/_gapcloser.1.1.fa 1 99390 39.689 1 99390 99390 99390 2 99390<br />test/run1/scaffolds.filled.fa 1 99390 39.689 1 99390 99390 99390 2 99390<br />test/run1/scaffolds.reduced.fa 1 99390 39.689 1 99390 99390 99390 2 99390</p><p>##################################################<br />[Mon May 7 11:29:35 2018] Cleaning-up...<br />#Time elapsed: 0:00:17.376924</p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/10741/managing-and-analyzing-next-generation-sequence-data</guid>
	<pubDate>Sat, 10 May 2014 06:28:06 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/10741/managing-and-analyzing-next-generation-sequence-data</link>
	<title><![CDATA[Managing and Analyzing Next-Generation Sequence Data]]></title>
	<description><![CDATA[<p>Centralized Bioinformatics Core Facilities provide shared resources for the computational and IT requirements of the investigators in their department or institution. As such, they must be able to effectively react to new types of experimental technology. Recently faced with an unprecedented flood of data generated by the next generation of DNA sequencers, these groups found it necessary to respond quickly and efficiently to the informatics and infrastructure demands. Centralized Facilities newly facing this challenge need to anticipate time and design considerations of necessary components, including infrastructure upgrades, staffing, and tools for data analyses and management ...</p>
<p>More at http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1000369</p><p>Address of the bookmark: <a href="http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1000369" rel="nofollow">http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1000369</a></p>]]></description>
	<dc:creator>Rahul Agarwal</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40214/gooey-turn-almost-any-python-command-line-program-into-a-full-gui-application-with-one-line</guid>
	<pubDate>Fri, 01 Nov 2019 00:29:27 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40214/gooey-turn-almost-any-python-command-line-program-into-a-full-gui-application-with-one-line</link>
	<title><![CDATA[Gooey: Turn (almost) any Python command line program into a full GUI application with one line]]></title>
	<description><![CDATA[<p><span>Turn (almost) any Python command line program into a full GUI application with one line</span></p>
<p>The easiest way to install Gooey is via&nbsp;<code>pip</code></p>
<pre><code>pip install Gooey 
</code></pre>
<p>Alternatively, you can install Gooey by cloning the project to your local directory</p>
<pre><code>git clone https://github.com/chriskiehl/Gooey.git
</code></pre>
<p>run&nbsp;<code>setup.py</code></p>
<pre><code>python setup.py install</code></pre><p>Address of the bookmark: <a href="https://github.com/chriskiehl/Gooey" rel="nofollow">https://github.com/chriskiehl/Gooey</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/12593/visiting-scientist-computational-genomics-two-positions</guid>
  <pubDate>Mon, 07 Jul 2014 22:53:41 -0500</pubDate>
  <link></link>
  <title><![CDATA[Visiting Scientist - Computational Genomics (two positions)]]></title>
  <description><![CDATA[
<p>Scientific/Managerial &amp; International Recruitment</p>

<p>ICRISAT seeks applications from Indian nationals Visiting Scientist-Computational Genomics (2 positions), to be part of a team of Centre of Excellence in Genomics (CEG), (www.icrisat.org/ceg) to work on legume genomics projects.  The positions will be based at ICRISAT’s Headquarters in Patancheru, Hyderabad, India.</p>

<p>ICRISAT is a non-profit, non-political organization that conducts agricultural research for development in Asia and sub-Saharan Africa with a wide array of partners throughout the world. Covering 6.5 million square kilometers of land in 55 countries, the semi-arid tropics is home to over 2 billion people, with 650 million of these are the poorest of the poor. ICRISAT and its partners help empower those living in the semi-arid tropics, especially smallholder farmers, to overcome poverty, hunger, malnutrition and a degraded environment through more efficient and profitable agriculture. ICRISAT is headquartered in Greater Hyderabad, Andhra Pradesh, India and belongs to the Consortium of Centers supported by the Consultative Group on International Agricultural Research (CGIAR).</p>

<p>The Job: Responsibilities for these positions include:</p>

<p>    Analyzing and handling large-scale next generation sequencing DNA and RNA data<br />    Data mining and development of pipelines and troubleshooting<br />    Genome diversity analysis such as SNPs, Indels, Structural Variations, population structure<br />    Genome wide association study (GWAS) related analysis- LD analysis, hapmap and trait mapping<br />    Expression analysis based on RNA-Seq data, annotation, gene ontology and metabolic pathway analysis<br />    Epigenome analysis, small RNA identification<br />    Gene family analysis, sequence level protein analysis, orthology/paralogy and molecular modelling<br />    Compiling and analysis of results, writing reports and research papers</p>

<p>The Person:  Ph.D. or MSc/MTech/PGDCA with two years research experience in Biotechnology, Computational biology, Agricultural/ Plant Biotechnology, Genetics, Molecular Biology or related discipline. Good knowledge of programming/scripting in at least two of following languages: Perl, C, C++, R, Shell Scripting and Python is plus.</p>

<p>How to apply: Please apply latest by 20 July 2014.  The application should include the name of the position applied for, a letter of motivation, a full Curriculum Vita (CV), and the names and contact information of three references that are knowledgeable of the candidate’s professional qualifications and work experience. Technical details and more information about these positions can be obtained from R.K.VARSHNEY@CGIAR.ORG. All applications will be acknowledged, however only short listed candidates will be contacted.</p>

<p>Apply here https://recruit.zoho.com/ats/Portal.na?digest=T642sgLYWZOStExJ77cPrcM*sIMGZETWw4yPxngbmHA-</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/41043/postdoctoral-scientist-genome-analytics-genome-bioinformatics-mf</guid>
  <pubDate>Sun, 16 Feb 2020 02:57:40 -0600</pubDate>
  <link></link>
  <title><![CDATA[Postdoctoral scientist genome analytics/ genome bioinformatics (m/f/*)]]></title>
  <description><![CDATA[
<p>https://www.uksh.de/jobs/Stellenangebote-nr-20190570-p-8.html<br />Your profile:<br />Degree in bioinformatics, biostatistics, or equivalent<br />Experience in the processing and analysis of large-scale genomics data using compute clusters / high-performance computing<br />Strong competence in working in Unix/Linux environments (shell)<br />Strong programming skills (in particular: Python, R, Perl)<br />Experience with using git and snakemake<br />Fluent English language skills, both spoken and written<br />Strong communication skills and motivation to work in a young, interdisciplinary, dynamic team</p>

<p>Additional Information:</p>

<p>If you have any questions about scientific aspects of this position, please contact Prof. Lars Bertram, head of LIGA (lars.bertram@uni-luebeck.de).</p>

<p>Please contact Ms. Anna Wolbert for further questions about administrative details (recruiting@uksh.de).</p>

<p>Weitere Informationen erhalten Sie auch unter www.uksh.de/karriere.</p>

<p>Wir freuen uns auf Ihre Bewerbung bis zum 15.03.2020 unter Angabe unserer Ausschreibungsnummer 20190570.119.CL.</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/11030/r-programming-and-jobs-website</guid>
	<pubDate>Sun, 25 May 2014 14:43:57 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/11030/r-programming-and-jobs-website</link>
	<title><![CDATA[R programming and Jobs website]]></title>
	<description><![CDATA[<p>Welcome to the R Jobs section of ProgrammingR.com. If your organization has an R employment opportunity that you would like to have posted here, submit it via the <a href="http://www.programmingr.com/contact" title="contact page">contact page</a>. Prospective employees: use the contact information provided in the position listing to apply or contact the hiring organization.</p><p>Address of the bookmark: <a href="http://www.programmingr.com/category/stype/r-job-listings/" rel="nofollow">http://www.programmingr.com/category/stype/r-job-listings/</a></p>]]></description>
	<dc:creator>Pragati Singh</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/44633/learn-python-with-example</guid>
	<pubDate>Tue, 06 Aug 2024 23:51:51 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/44633/learn-python-with-example</link>
	<title><![CDATA[Learn python with example]]></title>
	<description><![CDATA[<div><div><div><p>There are over 21 unique&nbsp;Python project&nbsp;walkthroughs in this content that range from beginner to advanced. See below for the timestamps for these projects:</p><p><span>00:00:00 | How To Navigate These Projects</span><br /><span>---</span><br /><span>00:01:46 | #1 - Quiz Game (Easy)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F5-Python-Projects-For-Beginners%2Fblob%2Fmain%2Fquiz_game.py" target="_blank">https://github.com/techwithtim/5-Python-Projects-For-Beginners/blob/main/quiz_game.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>00:22:00 | #2 - Number Guessing Game (Easy)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F5-Python-Projects-For-Beginners%2Fblob%2Fmain%2Fnumber_guesser.py" target="_blank">https://github.com/techwithtim/5-Python-Projects-For-Beginners/blob/main/number_guesser.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>00:39:49 | #3 - Rock, Paper, Scissors (Easy)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F5-Python-Projects-For-Beginners%2Fblob%2Fmain%2Frock_paper_scissors.py" target="_blank">https://github.com/techwithtim/5-Python-Projects-For-Beginners/blob/main/rock_paper_scissors.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>00:54:40 | #4 - Choose Your Own Adventure Game (Easy)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F5-Python-Projects-For-Beginners%2Fblob%2Fmain%2Fchoose_your_own_adventure.py" target="_blank">https://github.com/techwithtim/5-Python-Projects-For-Beginners/blob/main/choose_your_own_adventure.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>01:06:47 | #5 - Password Manager (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F5-Python-Projects-For-Beginners%2F" target="_blank">https://github.com/techwithtim/5-Python-Projects-For-Beginners/</a><span>&nbsp;</span><br /><span>Fernet Cryptography Documentation:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fcryptography.io%2Fen%2Flatest%2Ffernet%2F" target="_blank">https://cryptography.io/en/latest/fernet/</a><span>&nbsp;</span><br /><span>---</span><br /><span>01:37:37 | #6 - PIG (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F3-Mini-Python-Projects%2Fblob%2Fmain%2Fproject1.py" target="_blank">https://github.com/techwithtim/3-Mini-Python-Projects/blob/main/project1.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>01:59:07 | #7 - Madlibs Generator (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F3-Mini-Python-Projects%2Fblob%2Fmain%2Fproject2.py" target="_blank">https://github.com/techwithtim/3-Mini-Python-Projects/blob/main/project2.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>02:15:04 | #8 - Timed Math Challenge (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F3-Mini-Python-Projects%2Fblob%2Fmain%2Fproject3.py" target="_blank">https://github.com/techwithtim/3-Mini-Python-Projects/blob/main/project3.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>02:28:02 | #9 - Slot Machine (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2FPython-Slot-Machine" target="_blank">https://github.com/techwithtim/Python-Slot-Machine</a><span>&nbsp;</span><br /><span>---</span><br /><span>03:20:43 | #10 - Turtle Racing (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2FTurtle-Racing-V2" target="_blank">https://github.com/techwithtim/Turtle-Racing-V2</a><span>&nbsp;</span><br /><span>Turtle Docs:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fdocs.python.org%2F3%2Flibrary%2Fturtle.html" target="_blank">https://docs.python.org/3/library/turtle.html</a><span>&nbsp;</span><br /><span>---</span><br /><span>04:13:09 | #11 - WPM Typing Test (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2FWPM_Typing_Test" target="_blank">https://github.com/techwithtim/WPM_Typing_Test</a><span>&nbsp;</span><br /><span>Curses Docs:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fdocs.python.org%2F3%2Fhowto%2Fcurses.html" target="_blank">https://docs.python.org/3/howto/curses.html</a><span>&nbsp;</span><br /><span>05:09:43 | #12 - Alarm Clock (Easy)</span><br /><span>Python Project Idea Blog:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fhackr.io%2Fblog%2Fpython-projects" target="_blank">https://hackr.io/blog/python-projects</a><span>&nbsp;</span><br /><span>Sound Effects:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fwww.fesliyanstudios.com%2Froyalty-free-sound-effects-download%2Falarm-203" target="_blank">https://www.fesliyanstudios.com/royalty-free-sound-effects-download/alarm-203</a><span>&nbsp;</span><br /><span>---</span><br /><span>05:22:07 | #13 - Password Generator (Easy)</span><br /><span>Python Project Idea Blog:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fhackr.io%2Fblog%2Fpython-projects" target="_blank">https://hackr.io/blog/python-projects</a><span>&nbsp;</span><br /><span>---</span><br /><span>05:39:16 | #14 - Shortest Path Finder (Advanced)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F3-Mini-Python-Projects-For-Intermediates%2Fblob%2Fmain%2Fpath-finder.py" target="_blank">https://github.com/techwithtim/3-Mini-Python-Projects-For-Intermediates/blob/main/path-finder.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>06:14:53 | #15 - NBA Stats &amp; Current Scores (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F3-Mini-Python-Projects-For-Intermediates%2Fblob%2Fmain%2Fnba-scores.py" target="_blank">https://github.com/techwithtim/3-Mini-Python-Projects-For-Intermediates/blob/main/nba-scores.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>06:38:22 | #16 - Currency Converter (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2F3-Mini-Python-Projects-For-Intermediates%2Fblob%2Fmain%2Fcurrency-converter.py" target="_blank">https://github.com/techwithtim/3-Mini-Python-Projects-For-Intermediates/blob/main/currency-converter.py</a><span>&nbsp;</span><br /><span>API: https://free.currencyconverterapi.com/</span><br /><span>---</span><br /><span>06:58:51 | #17 - YouTube Video Downloader (Medium)</span><br /><span>Code: &nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2FPython-Beginner-Automation-Projects%2Fblob%2Fmain%2Fyoutube.py" target="_blank">https://github.com/techwithtim/Python-Beginner-Automation-Projects/blob/main/youtube.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>07:09:50 | #18 - Automated File Backup (Medium)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2FPython-Beginner-Automation-Projects%2Fblob%2Fmain%2Fbackup.py" target="_blank">https://github.com/techwithtim/Python-Beginner-Automation-Projects/blob/main/backup.py</a><span>&nbsp;</span><br /><span>---</span><br /><span>07:21:18 | #19 - Mastermind/4 Color Match (Advanced)</span><br /><span>---</span><br /><span>07:48:20 | #20 - Aim Trainer (Advanced)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2FPython-Aim-Trainer" target="_blank">https://github.com/techwithtim/Python-Aim-Trainer</a><span>&nbsp;</span><br /><span>---</span><br /><span>08:39:20 | #21 - Advanced Python Scripting (Advanced)</span><br /><span>Code:&nbsp;</span><a href="https://morioh.com/redirect?id=65b0752318cf2dc4d28010e1&amp;own=5ff684ea1a53c42123416f96&amp;l=https%3A%2F%2Fgithub.com%2Ftechwithtim%2FPython-Scripting-Project" target="_blank">https://github.com/techwithtim/Python-Scripting-Project</a><span>&nbsp;</span></p></div></div></div>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>

</channel>
</rss>