Results for "command-line"
Blogs
How to install Perl modules manually, using CPAN command, and other quick ways
As a bioinformatics programmer, and crunchy data analyser you need to install several perl modules and dependencies. Installing Perl modules manually by resolving all the...3991 days ago
Five points for bioinformatics software/tools
In the bioinformatics sector we mostly spend time on computational analysis of huge amounts of data and try to make sense of it, biologically. But, most of the newbie bioi...3749 days ago
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Bookmarks
Taverna Workflow Management System
Taverna is an open source domain independent Workflow Management System – a suite of tools used to design and execute scientific workflows. Taverna has been created...3957 days ago
- RNA Seq Basic Galaxy Tutorial RNA-Seq tutorial based on Trapnell et al. (2012) Nature Protocols In this tutorial we cover the concepts of RNA-Seq differential g...
3694 days ago
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Files
Detect the sequence pattern and its location in fasta file with match and mismatches information.
This script is one of my old script to detect some centromeric pattern in chromosomes. User can also control the number of mismatches allowed through command line .. To run: perl centro.pl3909 days ago
- Mostly FASTA file contain NNN characters, which can be replace by random A T G C character with this perl script. It also print the FASTA sequence name, N's counts, nucleotide count and percentage details at command prompt/standard output.
3907 days ago
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Pages
Bio++ : C Language libraries for your biological need
C has always been a language that never attempts to tie a programmer down - it allows for easy implementation, it comes with a genuinely useful standard library that can i...3989 days ago
- In our day to day research activity, we need to securely copy our data from several to local computer and visa-versa. I am jotting down some of the commonly used SCP com...
3743 days ago
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Top-level pages
List of Bioinformatics and Computational Biology Journals
Hi Bioinformatician and Computational Biologist, this is the comprehensive list of all (?) the bioinformatics and computational biology journals. Please update me if...3769 days ago
Best book Titles for Learning Bionformatics
Nothing can add to our intellect more than reading a book. In books, we can experience new things that we would not normally be able to experience. It is proved that...3959 days ago
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Wire posts
News
- Matthias Meyer and his team from the Max Planck Institute for Evolutionary Anthropology in Leipzig, Germany, have developed new techniques for retrieving and sequencing hi...
3823 days ago
Breaking chromosomes to study cancer !!!
Chromosomes are present in every cell of our body and they contain the information the body needs to develop and function properly. This information is carried in genes th...3621 days ago
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Opportunity posts
Bioinformatics PhD studentship available in New Zealand
Bioinformatics PhD studentship available in New Zealand The importance of transcriptional control has been explored in a burgeoning line of research over several decade...3989 days ago
Ph.D. Fellowship (Computational Biology/Bioinformatics) : Cork, Ireland : Cork, Ireland
Ph.D. Fellowship (18,000 euro/pa, plus tuition fees at the EU students rate) is available for four years to work on development of Bioinformatics resources for the analysi...3957 days ago
- +22 more Opportunity posts
ResearchLabs posts
- Bioinformatics relevant research topics are: genomic scale studies endogenous mechanisms of mutations, germ line and somatic computational aspects of immunology in c...
3937 days ago
- The Bioinformatics Centre at BISR has created an infrastructure for providing facilities to the users working in the field of Biological Sciences. The users of Rajasthan,...
3266 days ago
Fun
Bioinformatician special skills !!
Bioinformatician and Computational biologist are the only programmers on Earth who can explain multiplication and division are the same. Pretty codes for them ... /([+...3937 days ago
- Why was the Bioinformatics fired from his job? A: He was getting too Sassy. What did the bioinformatician say when he found out his team stopped using version co...
3222 days ago
Video
Bioinformatics 101 - Running BLAST
How to format the database for BLAST, run the command, view the output file, and use BioPerl and Perl to parse the output. By David Francis, Ohio State University. Deliver...3938 days ago
PHP Tutorial 1 - Introduction (PHP For Beginners)
In this tutorial we go over a short presentation on what PHP is, what is required to learn it and what we will be covering further down the line. This video will hopefully...3690 days ago
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Bio-Scripts
Download genome using NCBI esearch command line !
#Download using command line "NC_005956.1" / "CP003784.1" esearch -db nucleotide -query "NC_005956.1" | efetch -format fasta > seq1.fa esearch -db nucleotide -query "...1143 days ago
R script to visualize fastANI core-genome comparison
####### # Purpose: Visualize fastANI core-genome comparison # Usage: Rscript # Output: .pdf # Uses genoPlotR package: http://genoplotr.r-forge.r-project.org #P...1143 days ago
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Comments
Comment on "Benchmarking Perl Module !"
Benchmarking a Perl module involves measuring the performance of the module in terms of its execution time and memory usage. This can be done using the...457 days ago
Comment on "Short-read assembly using Spades !"
...ous tools such as Trimmomatic or FastQC. Running SPAdes: After quality control, the next step is to run SPAdes. This can be done through a command-line interface or a graphical user...457 days ago
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