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artemis

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

bio-playground

Random collection of bioinformatics thingies

book

Lectures and labs for PH525x: Data Analysis for Genomics

catpac

a Contig Alignment Tool for Pairwise Assembly Comparison

cayman-theme

A responsive theme for GitHub Pages

circlator

A tool to circularize genome assemblies

dnds

Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method.

frebio.github.io

getting-started-with-genomics-tools-and-resources

Unix, R and python tools for genomics

jcvi

Python utility libraries on genome assembly, annotation and comparative genomics

just-the-docs

A modern, high customizable, responsive Jekyll theme for documention with built-in search.

khmer

In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

komics

Kinetoplast genOMICS

labs

Scripts for PH525x: Data Analysis for Genomics

megahit

MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

miseqvalpipeline

Sequence Validation Pipeline for JBEI

mytools

some useful tools for WGS data analyses

novoplasty

NOVOPlasty - The organelle assembler

pygenometracks

python module to plot beautiful and highly customizable genome browser tracks

python-books

rkomics

salmonellaxmldata

selectiontools

Pipeline to take VCF through to Selection Analysis.

tutorials

Tutorials on phylogenetic and phylogenomic methods

wesanderson

A Wes Anderson color palette for R