Pinned Repositories
bcftools
bog_2015_poster
64,976 whole genome haplotypes from the Haplotype Reference Consortium and efficient algorithms to use them
capmq
Simple program to cap mapping quality in a given alignment file
freebayes
Bayesian haplotype-based polymorphism discovery and genotyping.
gi2017-vgp-poster
Scaling up reference quality assembly of vertebrate genomes
hrc-release1
Setup for genotype likelihood calculation for the Haplotype Reference Consortium Release 1
miniasm
Ultrafast de novo assembly for long noisy reads (though having no consensus step)
minimap2
A fast pairwise aligner for genomic and spliced nucleotide sequences
samtools
mcshane's Repositories
mcshane/bog_2015_poster
64,976 whole genome haplotypes from the Haplotype Reference Consortium and efficient algorithms to use them
mcshane/capmq
Simple program to cap mapping quality in a given alignment file
mcshane/samtools
mcshane/freebayes
Bayesian haplotype-based polymorphism discovery and genotyping.
mcshane/gi2017-vgp-poster
Scaling up reference quality assembly of vertebrate genomes
mcshane/hrc-release1
Setup for genotype likelihood calculation for the Haplotype Reference Consortium Release 1
mcshane/miniasm
Ultrafast de novo assembly for long noisy reads (though having no consensus step)
mcshane/minimap2
A fast pairwise aligner for genomic and spliced nucleotide sequences
mcshane/bcftools
mcshane/bcftools_plugins
mcshane/bgt
Flexible genotype query among 30,000+ samples whole-genome
mcshane/bgzeof
Detect truncation of BGZF files by checking the EOF marker exists
mcshane/biogenomics-2017-vgp-poster
Plans for scaling vertebrate genome sequencing and assembly at the Sanger Institute
mcshane/bwa
Burrow-Wheeler Aligner for pairwise alignment between DNA sequences
mcshane/crumble
Exploration of controlled loss of quality values for compressing CRAM files
mcshane/DAZZ_DB
The Dazzler Data Base
mcshane/hapdip
The CHM1-NA12878 benchmark for single-sample SNP/INDEL calling from WGS Illumina data
mcshane/htslib
mcshane/pbwt
mcshane/phd_thesis
mcshane/sga
mcshane/tabix
mcshane/vg
tools for working with variant graphs
mcshane/vgp-assembly
VGP repository for the genome assembly working group
mcshane/vgp.github.io
mcshane/www.htslib.org
The http://www.htslib.org/ web site