Pinned Repositories
Bio-Kseq
Perl XS bindings to klib's kseq.h
Bio-Parse
Low level biological data parsers
Bio-Stream
Generic streams for BioPerl parsing
Bio-Tools-Primer3Redux
A reimplementation of BioPerl's Primer3-related code for primer3 v1 and v2
bio.brew
A tiny package manager for crucial unix and bioinformatics tools
biolib
BioLib brings together a set of opensource libraries written in C/C++ and makes them available for all Bio* languages
biome
An experimental Moose-based BioPerl implementation
bioperl6
reimplementation of BioPerl classes in Raku (e.g. the language formerly known as Perl6)
pBWA
Parallel bwa implementation
readfq
Fast multi-line FASTA/Q reader in several programming languages
cjfields's Repositories
cjfields/readfq
Fast multi-line FASTA/Q reader in several programming languages
cjfields/biolib
BioLib brings together a set of opensource libraries written in C/C++ and makes them available for all Bio* languages
cjfields/Bio-Kseq
Perl XS bindings to klib's kseq.h
cjfields/pBWA
Parallel bwa implementation
cjfields/Bio-Parse
Low level biological data parsers
cjfields/Bio-Stream
Generic streams for BioPerl parsing
cjfields/bio.brew
A tiny package manager for crucial unix and bioinformatics tools
cjfields/SVG-Graph
Visualize Graph.pm data in SVG
cjfields/ActiveResource
The Perl implementation of ActiveResource
cjfields/assemblage
Tools for working with second gen assemblies, fasta sequences, etc
cjfields/bamtools
API and toolkit for reading, writing, and manipulating BAM (genome alignment) files
cjfields/bcbio.variation
Toolkit to analyze genomic variation data, built on the GATK with Clojure
cjfields/bedtools
A flexible suite of utilities for genome arithmetic. That is, set theory on genomic features.
cjfields/bio-gff3
fast, low-level GFF3 manipulation in Perl
cjfields/bioperl-collection
submodule test for bioperl repos
cjfields/Dist-Zilla-PluginBundle-CJFIELDS
My Dist::Zilla plugin bundle (or bungle, depending on how you look at it)
cjfields/redmine_github_hook
Allow your Redmine installation to be notified when changes have been pushed to a Github repository.
cjfields/sambamba
Tools for working with SAM/BAM data (development suspended until July)
cjfields/seqtk
cjfields/AMPHORA2
An Automated Phylogenomic Inference Pipeline for Bacterial and Archaeal Sequences.
cjfields/Bio-PacBio
General BioPerl modules for PacBio-related tools (EXPERIMENTAL)
cjfields/datasharing
The Leek group guide to data sharing
cjfields/fastq-tools
Small utilities for working with fastq sequence files.
cjfields/issue-migration-test
test bioperl issue migration
cjfields/khmer
in-memory k-mer counting
cjfields/redmine-issues-to-github
Reads issues from a redmine API XML and adds them to a github repository.
cjfields/samtools
cjfields/Wright