Beast code in Giters

Josh Waterfall's repositories

RetroSeq

RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference transposable elements.

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2016-02-16-NIH

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COSMIC.build57

An R data package for the COSMIC database

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ngCGH

Tools for producing pseudo-cgh of next-generation sequencing data

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PyVCF

A Variant Call Format reader for Python.

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velvet

Short read de novo assembler using de Bruijn graphs

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1979-05-25-Virginia

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annotation-pipeline

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bamtools

C++ API & command-line toolkit for working with BAM data

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bio-playground

miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.

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rstudio

RStudio is an integrated development environment (IDE) for R

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seqtk

Toolkit for processing sequences in FASTA/Q formats

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serpentine

Serpentine is a growing collection of rules and workflows for NGS data processing.

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serpentine2

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shell-novice

Software Carpentry introduction to the shell for novices.

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snakemake-mode

Emacs major mode for editing Snakemake files

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TelMe

Telomere counting from NGS data

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telseq

A software for calculating telomere length

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xomx

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