milkweedgenome.org - Some of the useful bioinformatics scripts.
For example ... contig-stats.pl is a Perl script that will automatically describe features of a sequence assembly.
http://milkweedgenome.org/?q=scripts
readthedocs.org - Bipype is a very useful program, which prepare a lot of types of bioinformatics analyses. There are three input options: amplicons, WGS (whole genome sequences) and metatranscriptomic data. If amplicons are input data, then bipype does...
github.com - Turn (almost) any Python command line program into a full GUI application with one line
The easiest way to install Gooey is via pip
pip install Gooey
Alternatively, you can install Gooey by cloning the project to your local directory
git...
github.com - Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics.
https://github.com/tanghaibao/jcvi
More at https://github.com/tanghaibao/jcvi/wiki
http://scikit-bio.org/ - scikit-bio is currently in beta. We are very actively developing it, and backward-incompatible interface changes can and will arise. To avoid these types of changes being a surprise to our users, our public APIs are decorated to make it clear...
github.com - Tinycov is a small standalone command line utility written in python to plot the coverage of a BAM file quickly. This software was inspired by Matt Edwards' genome coverage plotter.
To install the stable version: pip3 install --user...
deltarho.org - Trelliscope provides a way to flexibly visualize large, complex data in great detail from within the R statistical programming environment. Trelliscope is a component in the DeltaRho environment.
For those familiar with Trellis...
In an attempt to find a good Linux reference for bioinformatician and BOL readers, I was unsuccessful at finding a decent one on the Internet. So, we decided to make a cheat sheet for biological programmers.
Here come on let play with the following basic command line usage of the ssh client.1. Check your SSH Client Version:Checking for your SSH client is very sare, but sometimes it may be necessary to identify the SSH client that you are currently...