Alternatives and similar repositories for vargas:

Users that are interested in vargas are comparing it to the libraries listed below

• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 6 years ago
• medvedevgroup / BubbZ
  ☆15Updated 4 years ago
• prophyle / prophasm
  ProphAsm – a rapid computation of simplitigs directly from k-mer sets
  ☆26Updated last year
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• biointec / browniealigner
  Alignment algorithm for short Illumina reads to a de Bruijn graph
  ☆16Updated 5 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 2 months ago
• PROBIC / mSWEEP
  mSWEEP High-resolution sweep metagenomics using fast probabilistic inference
  ☆13Updated 3 months ago
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• TavorB / spectral_jaccard_similarity
  ☆14Updated 2 years ago
• VGP / vgp-tools
  ☆28Updated last year
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆32Updated 2 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 4 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆36Updated last year
• mklarqvist / djinn
  C++ library for analysing and storing large-scale cohorts of sequence variant data
  ☆17Updated 5 years ago
• Kingsford-Group / variantstore
  VariantStore: A Large-Scale Genomic Variant Search Index
  ☆39Updated 3 years ago
• IndexThePlanet / LoganSearch
  A k-mer search engine for all Sequence Read Archive public accessions
  ☆19Updated 2 months ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated last year
• ekg / HLA-zoo
  genome variation graphs constructed from HLA GRCh38 ALTs
  ☆22Updated 3 years ago
• hanzou666 / msa2gfa
  A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg
  ☆11Updated 5 years ago
• kdm9 / axe
  Rapid competitive read demulitplexer. Made with tries.
  ☆23Updated last year
• ekg / wflign
  the we-flyin WFA-guided ultralong tiling sequence aligner
  ☆11Updated 3 years ago
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆49Updated 7 months ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• ParBLiSS / PaSGAL
  Parallel Sequence to Graph Alignment
  ☆35Updated 2 years ago
• cdarby / genomicsjc
  Johns Hopkins University student-led genomics paper discussion group
  ☆13Updated 4 years ago
• lh3 / rmaxcut
  An experimental tool to find approximate max-cuts in a large graph
  ☆11Updated 3 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated 8 months ago