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bcl_barcode_count

tally barcodes from Illumina sequencing machines

brettwhitty.github.io

bw-ca-tools

A small patch for Celera Assembler to add SLURM support

bw-msu-sites

bw-msu-tools

Archive of personal scripts repository from my various projects in the Buell Lab at MSU (Jan. 2008 - Apr. 2011)

chord

Implementation of the CHORD protocol

damage-estimator

Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such as transposon based methods and Ultra II FS library preparation from NEB).

delfi_scripts

dg

ergatis

Ergatis is a web-based utility that is used to create, run, and monitor reusable computational analysis pipelines; I was a developer on this project at The Institute for Genomic Research/J. Craig Venter Institute from 2005 to 2008.

ergatis_lite

"Ergatis Lite" allows running Ergatis components & pipelines as simple command line tools; abandoned side project from 2007

gobcly

POC code for specific streaming demultiplexing applications; contact author for more details.

homebrew-utils

icgc-dcmwg

Various utility scripts and ICGC DCC data specification templates / conversion tools written during early development work on the current ICGC DCC data portal (2.0)

jcvi_hmp_metagenomic_pipeline

My CAMERA metagenomic annotation pipeline code as featured in "The JCVI standard operating procedure for annotating metagenomic shotgun sequencing data" and the "JCVI HMP metagenomic pipeline"

jivebunny

Udo Stenzel’s jivebunny — a probabilistic demultiplexer for Illumina sequencing data [MIRROR]

jsv

Grid Engine JSV (Job Submission Verifier) implementation for Go (#golang).

net

pouch-redux-middleware

PouchDB Redux Middleware

well_duplicates

localised duplicate detection on patterned flow cells