Pinned Repositories
aLib
BCL2BAM2FASTQ
deML
Maximum likelihood demultiplexing
freeIbis
An efficient basecaller for Illumina sequencers with calibrated quality scores
gargammel
gargammel is an ancient DNA simulator
glactools
command-line tools for the management of genotype likelihoods and allele counts
leeHom
Bayesian reconstruction of ancient DNA fragments
ROHan
Joint inference of heterozygosity rates and runs of homozygosity
schmutzi
Maximum a posteriori estimate of contamination for ancient samples
vgan
Suite of tools for pangenomics built using vg
grenaud's Repositories
grenaud/deML
Maximum likelihood demultiplexing
grenaud/glactools
command-line tools for the management of genotype likelihoods and allele counts
grenaud/gargammel
gargammel is an ancient DNA simulator
grenaud/leeHom
Bayesian reconstruction of ancient DNA fragments
grenaud/schmutzi
Maximum a posteriori estimate of contamination for ancient samples
grenaud/vgan
Suite of tools for pangenomics built using vg
grenaud/ROHan
Joint inference of heterozygosity rates and runs of homozygosity
grenaud/dice
Joint estimate of demography and contamination for nuclear ancient DNA
grenaud/DNA2INT
quick benchmarking to check the best way to transform DNA letters to integers
grenaud/baselengthFilter
This program reads a BAM and produces another with a length filter applied on reads
grenaud/insertsize
Simple C++ program built using samtools to get the insert size from BAM files
grenaud/bam2prof
the subprogram in schmutzi but rewritten using htslib
grenaud/cinch
grenaud/libgab
A C++ class of useful little functions
grenaud/mappability_snpable
grenaud/mitochondrialSimulator
A simple mitochondrial simulator
grenaud/bibtexFixCaps
Fix the capitalization problems for bibtex.
grenaud/bioconda-recipes
Conda recipes for the bioconda channel.
grenaud/bowtie2
A fast and sensitive gapped read aligner
grenaud/epoParser
This program an EPO alignment index and fasta index for the genome and produces a tab delimited output
grenaud/grenaud.github.io
grenaud/ISBArch.github.io
Website for the International Society for Biomolecular Archaeology
grenaud/libbam
Library of various programs based on bamtools
grenaud/namedPipes
grenaud/plass
Protein-Level ASSembler (PLASS): sensitive and precise protein assembler
grenaud/redirectSTDout
grenaud/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
grenaud/star_trek_linguistics
Did the quality of English go down in Star Trek transcripts?
grenaud/testC-Obj
minimal code to learn C++ objects
grenaud/vg
tools for working with genome variation graphs