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SibeliaZ

A fast whole-genome aligner based on de Bruijn graphs

TwoPaCo

A fast constructor of the compressed de Bruijn graph from many genomes

UST

vargeno

Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.

BubbZ

bloomtree-allsome

Sequence Bloom Trees with All/Some split

HowDeSBT

Sequence Bloom Tree, supporting determined/how split filters

varmatch

robust matching of small variant datasets using flexible scoring schemes

ESSColor

ESSCompress

pla-index

mutation-rate-intervals

Support for "statistics of k-mers from a sequence undergoing a simple mutation process without spurious matches"

cnfind

eskemap

Sources for sketch-based all-hits read mapping paper

isvda

iterative small variant detecting algorithm

minimizer-jaccard-estimator

Support for minimizer Jaccard estimator

refpluspipeline

assembly-artifacts-paper-experiments

bioinformatics_submission_guides

Bioinformatics Journal Guides

ContigValidator

It outputs the alignment of an assembler using simple exact matching and bwa mem

directed-unitigs

internal

MashMap

A fast approximate aligner for long DNA sequences

pla-complexity-figures

SbtPlayData

Very small examples for testing Sequence Bloom Trees and similar data structures

test

This is an empty repository for the purposes of figuring out how github works

vargeno_lite

Memory Lite version of VarGeno