Results for "Command%20lines"
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 d...3950 days ago
- In comparative genome analysis work, we usually compare more than two genomes and looks for syntenic regions amongst them. In my research I used Evolution Highway (RH) ht...
3940 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 b...3915 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 ge...
3653 days ago
- +64 more Bookmarks
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.pl3868 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.
3866 days ago
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 it...3947 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 comm...
3701 days ago
- +13 more Pages
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next generation quantitative genetics in plants. Jiménez-Gómez, Frontiers in Plant Science 2:77, 2011 Full Text [equally relevant to a...3779 days ago
List of In-silico Binding Site Prediction Tools
Following are the list of In-silico Binding Site Prediction in Proteins tools CASTp : http://sts.bioengr.uic.edu/castp/ Computed Atlas of Surface Topography of prote...3744 days ago
- +23 more Top-level pages
Wire posts
News
Linux operating system aimed at scientists
The Bio-Linux operating system is based on Ubuntu 14.04 LTS (Trusty Tahr), and the previous version was using Ubuntu 12.04 LTS. The developers only use LTS releases and tha...3394 days ago
- R 3.2.0 (codename “Full of Ingredients”) was released yesterday. You can get the latest binaries version from here. (or the .tar.gz source c...
3305 days ago
Opportunity posts
Internship in Computational Biology
We are looking for a motivated and autonomous intern to study gene expression in hybrid organisms. The student will work on natural hybrids of two or three different specie...3531 days ago
JRF Bioinformatics at National Institute of High Security Animal Diseases (ICAR)
F.No. 4-59/2013-NIHSAD Dated: 21st April, 2015 SRF/ JRF job vacancies in National Institute of High Security Animal Diseases (ICAR) Name of Post : JRF No. of Post...3295 days ago
- +5 more Opportunity posts
Fun
- 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 con...
3180 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. Delivere...3897 days ago
- Presented July 30, 2014 and covering: an NCBI BLAST AMI at Amazon Web Services; introduction to AWS and setting up an instance; running command line BLAST and using the BLAST URL API via the AMI; and answers to attendee questions.
3519 days ago
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 "C...1101 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 #Pa...1101 days ago
- +58 more Bio-Scripts
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...415 days ago
Comment on "Short-read assembly using Spades !"
Short-read assembly is the process of constructing a genome sequence from a large number of short sequencing reads. SPAdes (St. Petersburg genome assemb...415 days ago
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