Giters
John Marshall (jmarshall)

jmarshall

Geek Repo

126

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Location:Wānaka, New Zealand

Twitter:@jomarnz

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Organizations
bioconda
ga4gh
pysam-developers
samtools

John Marshall's repositories

cansam

C++ binding for SAM/BAM files

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klib

A standalone and lightweight C library

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docs

The open-source repo for docs.github.com

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manconvert

Convert troff-style man pages to doxygen source or formatted HTML

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actionlint

:octocat: Static checker for GitHub Actions workflow files

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atropos

An NGS read trimming tool that is specific, sensitive, and speedy. (production)

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bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

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bedtools2

A powerful toolset for genome arithmetic.

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bioconda-recipes

Conda recipes for the bioconda channel.

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bioconda-utils

Utilities for building and managing bioconda recipes

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bwa

Burrow-Wheeler Aligner

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cpython

The Python programming language

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deepSNV

The official repository for the deepSNV bioconductor packages. Branch master tracks the official Bioconductor development branch.

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fedora-packages

Remote forks of src.fedoraproject.org RPM specs

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gatk

Official code repository for GATK versions 4 and up

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HexFiend

A fast and clever hex editor for macOS

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hts-specs

Draft changes to SAM/BAM and related high-throughput sequencing specifications

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htscodecs

Custom compression for CRAM and others.

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htsjdk

A Java API for high-throughput sequencing data (HTS) formats.

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htslib

C library for high-throughput sequencing data formats

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minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

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pysam

Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.

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samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

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setuptools

Official project repository for the Setuptools build system

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snakemake

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TASC

TASC aids the harmonisation of aspects of GA4GH's various products that would otherwise prevent different products from being used together conveniently.

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test

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unifrac-binaries

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VariantAnnotation

Annotation of Genetic Variants

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www.htslib.org

The htslib.org web site

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