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aav

Scripts for analyzing PacBio AAV sequences

bcbio-nextgen

Validated, scalable, community developed variant calling and RNA-seq analysis

biocma

Consensus Multiple Alignment format, using Biopython classes.

bioconda-recipes

Conda recipes for the bioconda channel.

biofrills

Biomolecular sequence analysis modules -- a supplement to Biopython

bioinformatics

Tools for bioinformatics

biopython

Eric's personal Biopython branch

biopython.github.io

Source of biopython.org website, migrated from MediaWiki

bioseq.js

Simple biomolecular sequence processing for Javascript

bodymap

Draw anatomical maps.

cladecompare

cnvkit

Copy number variant detection from targeted DNA sequencing

cnvkit-dnanexus

DNAnexus app for CNVkit

cnvkit-examples

Example datasets for CNVkit (http://github.com/etal/cnvkit)

doc2wdl

Create WDL tasks from CLI help text

dx-toolkit

DNAnexus platform client libraries

etal.github.io

fammer

For protein superfamily sequence profile alignment and curation.

genomelake

Simple and efficient access to genomic data for deep learning models.

igv

Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations

lofsigrank

Identify potential tumor suppressors from the relative burden of loss-of-function mutations.

pytest-wdl

WDL plugin for pytest

seaborn

Statistical data visualization using matplotlib

talks

theta

Tumor Heterogeneity Analysis (THetA) is an algorithm that estimates the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data.

vcf-scripts