Pinned Repositories
giraffe-sv-paper
graph-genomics-review
Pangenome graphs (review article on graph-based pangenomic methods)
gssw
efficient alignment of strings to partially ordered string graphs
libbdsg
Optimized sequence graph implementations for graph genomics
libhandlegraph
Library for the Handle Graph abstraction
sequenceTubeMap
displays multiple genomic sequences in the form of a tube map
sv-genotyping-paper
toil-vg
Distributed and cloud computing framework for vg
vg
tools for working with genome variation graphs
vg_wdl
Workflow Description Language (WDL) scripts for common vg workflows
vgteam's Repositories
vgteam/vg
tools for working with genome variation graphs
vgteam/sequenceTubeMap
displays multiple genomic sequences in the form of a tube map
vgteam/giraffe-sv-paper
vgteam/gssw
efficient alignment of strings to partially ordered string graphs
vgteam/libbdsg
Optimized sequence graph implementations for graph genomics
vgteam/toil-vg
Distributed and cloud computing framework for vg
vgteam/libhandlegraph
Library for the Handle Graph abstraction
vgteam/vg_wdl
Workflow Description Language (WDL) scripts for common vg workflows
vgteam/GetBlunted
For bluntifying overlapped GFAs
vgteam/libvgio
A dynamic library that provides io for the vg toolkit.
vgteam/sdsl-lite
Succinct Data Structure Library 2.0
vgteam/vg_snakemake
Snakemake workflow for the vg toolkit.
vgteam/xg
xg0: a simpler xg index
vgteam/long-read-giraffe-experiments
Experimental materials for testing the long-read mapping abilities of vg giraffe
vgteam/dozeu
SIMD-parallel BLAST X-drop DP on sequence graphs
vgteam/DYNAMIC
Dynamic succinct/compressed data structures
vgteam/gfakluge
A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
vgteam/libsnarls
Library for working with variable sites in handle graphs
vgteam/structures
A collection of c++ data structures I've coded up for various projects
vgteam/vcflib
a simple C++ library for parsing and manipulating VCF files, + many command-line utilities
vgteam/Complete-Striped-Smith-Waterman-Library
vgteam/dind
Docker in Docker
vgteam/haplotype-aware-mapping-paper
Scripts for the haplotype-aware mapping paper project
vgteam/htslib
C library for high-throughput sequencing data formats
vgteam/libbdsg-easy
Easy installation for libbdsg
vgteam/sublinear-Li-Stephens
Calculates the probability of a haplotype given a population reference panel
vgteam/Superbubbles
SUPBUB is a tool that, in linear time, finds out superbubbles(special graph-structures) in a directed graph.
vgteam/vg_ci_prebake
Prebaked Docker image to speed up VG CI
vgteam/WFA2-lib
WFA2-lib: Wavefront alignment algorithm library v2
vgteam/YeastGraphs
Contains scripts for generating variant graphs for a whole bunch of yeast strains. Pan-genomics in every sense of the word.