jrherr

fasta_utilities

A collection of scripts developed to interact with fasta, fastq and sam/bam files.

jrherr.github.com

Open Notebook

Python_for_Data_Science

A rapid on-ramp primer for programmers who want to learn Python for doing data science research and development.

2014-03-17-purdue

Bootcamp at Purdue University in March 2014

bc

Template for Software Carpentry bootcamp site repository.

bedtools2

A powerful toolset for genome arithmetic.

BinGeR

BinGeR: in-situ Genome recovery tool for series metagenomes

bioinformatics

Tools for bioinformatics

cosmid

Genomics database manager

d3

A JavaScript visualization library for HTML and SVG.

homebrew-cask

a friendly homebrew-style CLI workflow for the administration of Mac applications distributed as binaries

homebrew-science

Scientific formulae for the Homebrew package manager

httr

httr: a friendly http package for R

jbrowse

A modern genome browser built with JavaScript and HTML5.

jekyll-bootstrap

The quickest way to start and publish your Jekyll powered blog. 100% compatible with GitHub pages.

jmpress.js

A jQuery plugin to build a website on the infinite canvas

khmer_diversity

Tools to evaluate the diversity of metagenomics sample

metAMOS

A metagenomic and isolate genome assembly pipeline built with AMOS

poppin

A tool for bacterial gene assembly.

psmc

Punchcard

Generate GitHub-style punchcard charts with ease.

pysam

Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

Rphylip

An R interface for PHYLIP.

rst2html5

transform restructuredtext documents to html5 + twitter's bootstrap css, deck.js or reveal.js

samtools

This is the official development repository for samtools.

SeqPrep

Tool for stripping adaptors and/or merging paired reads with overlap into single reads.

Sibelia

Genome comparison via de Bruijn graph. To get the latest stable version, please visit our site.

startbootstrap

Better HTML Starter Templates for Bootstrap 3

taxize

Search web taxonomy sites and download data

vectoreditor

Web based DNA sequence editing and analysis tool