Chris Fields

bioperl6. reimplementation of BioPerl classes in Raku (e.g. the language formerly known as Perl6)

biome. An experimental Moose-based BioPerl implementation

Bio-Tools-Primer3Redux. A reimplementation of BioPerl's Primer3-related code for primer3 v1 and v2

readfq. Fast multi-line FASTA/Q reader in several programming languages

biolib. BioLib brings together a set of opensource libraries written in C/C++ and makes them available for all Bio* languages

pBWA. Parallel bwa implementation

Bio-Kseq. Perl XS bindings to klib's kseq.h

microbiome_helper. An assortment of scripts to help process and automate various microbiome and metagenomic bioinformatic tools.

p6-Bio-HTSLib. Perl6 NativeCall bindings to htslib

bio.brew. A tiny package manager for crucial unix and bioinformatics tools

SVG-Graph. Visualize Graph.pm data in SVG

NGI-RNAseq. Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.

Bio-Parse. Low level biological data parsers

Bio-Stream. Generic streams for BioPerl parsing

bold. Interface to the Bold Systems barcode webservice

Dist-Zilla-PluginBundle-CJFIELDS. My Dist::Zilla plugin bundle (or bungle, depending on how you look at it)

Bandage. a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

bp6-bug. Lexical loading bug?

github-paper. Plos in Computational Biology paper related with github for researchers, code, source and document

seqtk. C

bamtools. API and toolkit for reading, writing, and manipulating BAM (genome alignment) files

redmine2github. Scripts to migrate redmine tickets to github issues

bedtools. A flexible suite of utilities for genome arithmetic. That is, set theory on genomic features.

p6-Crypt-Bcrypt. Bcrypt password hashing in Perl6

sambamba. Tools for working with SAM/BAM data (development suspended until July)

bcbio.variation. Toolkit to analyze genomic variation data, built on the GATK with Clojure

common-workflow-language. Repository for CWL Specifications. Use https://www.biostars.org/t/cwl/ for support.

redmine_github_hook. Allow your Redmine installation to be notified when changes have been pushed to a Github repository.

datasciencecoursera. Temp repo for Data Science Toolbox course

p6-File-Temp. Simple implementation of File::Temp for creating temporary files

Bio-HTS. Source for the CPAN Bio::DB::HTS module. Perl adaptors into the HTSlib library.

panda. Perl 6 module management solution, -Ofun

p6-Bio-Samtools. Perl6 binding to samtools

Bio-Root-MOP. Moose-based Bio::Root bridge classes (testing for BioPerl)

assemblage. Tools for working with second gen assemblies, fasta sequences, etc

bioperl-collection. submodule test for bioperl repos

bioinformatics. Tools for bioinformatics

bio-gff3. fast, low-level GFF3 manipulation in Perl

genomediff-python. GenomeDiff (*.gd) file parser for Python

ActiveResource. The Perl implementation of ActiveResource