Joel Martin (joelmartin)

joelmartin

Geek Repo

Company:JGI

Location:These United States

Home Page:http://lbl.gov

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Joel Martin's repositories

test

setting up first repo

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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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CNVnator

a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads

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gatk-protected

GATK Official Release Repository: contains the core MIT-licensed GATK framework, plus "protected" tools restricted to non-commercial use only

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hwraid

HWRaid: Free code from http://hwraid.le-vert.net

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jgi_kbase_integration_tests

Test code for testing jgi kbase integration, from data import through assembly.

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memtime

Measure time and memory consumption. copied from http://www.update.uu.se/~johanb/memtime/

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metasv

MetaSV: An accurate and integrative structural-variant caller for next generation sequencing

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pindel

Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It uses a pattern growth approach to identify the breakpoints of these variants from paired-end short reads.

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mountblockd

Launch daemon blocking auto mounting of certain volumes

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pindel2vcfplay

pulling apart pindel2vcf to see how it works because its unhappy with our weird plant 30,000+ contig genomes

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sambamba

Tools for working with SAM/BAM/CRAM data

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