Shane McCarthy mcshane Wellcome Trust Sanger Institute Cambridge, UK

dfguan/purge_dups 109

haplotypic duplication identification tool

thegenemyers/FASTK 89

A fast K-mer counter for high-fidelity shotgun datasets

dfguan/pins 5

scaffolding based on Hi-C, 10X linked reads, linkage disequilibrium information.

mcshane/bog_2015_poster 5

64,976 whole genome haplotypes from the Haplotype Reference Consortium and efficient algorithms to use them

mcshane/capmq 2

Simple program to cap mapping quality in a given alignment file

mcshane/freebayes 1

Bayesian haplotype-based polymorphism discovery and genotyping.

mcshane/gi2017-vgp-poster 1

Scaling up reference quality assembly of vertebrate genomes

mcshane/hrc-release1 1

Setup for genotype likelihood calculation for the Haplotype Reference Consortium Release 1

mcshane/miniasm 1

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

mcshane/minimap2 1

A fast pairwise aligner for genomic and spliced nucleotide sequences

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