Alternatives and similar repositories for vargas:

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

• VGP / vgp-tools
  ☆28Updated 3 weeks ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 6 years ago
• medvedevgroup / BubbZ
  ☆15Updated 4 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• prophyle / prophasm
  ProphAsm – a rapid computation of simplitigs directly from k-mer sets
  ☆26Updated 2 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• PROBIC / mSWEEP
  mSWEEP High-resolution sweep metagenomics using fast probabilistic inference
  ☆14Updated 6 months ago
• biointec / browniealigner
  Alignment algorithm for short Illumina reads to a de Bruijn graph
  ☆16Updated 5 years ago
• rvaser / rala
  Layout module for raw de novo genome assembly of long uncorrected reads.
  ☆21Updated 4 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 4 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 6 months ago
• ekg / wflign
  the we-flyin WFA-guided ultralong tiling sequence aligner
  ☆11Updated 3 years ago
• rchikhi / rust-seq2kminmers
  Iterate k-min-mers from a DNA sequence in Rust
  ☆13Updated last year
• rcedgar / syncmer
  Validation of sycnmers compared to minimizers
  ☆11Updated 4 years ago
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• edawson / svaha
  Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]
  ☆12Updated last year
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆32Updated 2 years ago
• ZekunYin / RabbitMash
  RabbitMash: an efficient highly optimized implementation of Mash.
  ☆21Updated last year
• AntonBankevich / jumboDB
  De Bruijn graph construction for large k.
  ☆18Updated 3 years ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated last month
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆49Updated 11 months ago
• hanzou666 / msa2gfa
  A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg
  ☆12Updated 6 years ago
• jts / mbtools
  ☆14Updated last year
• IndexThePlanet / LoganSearch
  A k-mer search engine for all Sequence Read Archive public accessions
  ☆29Updated 6 months ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆33Updated 4 years ago
• uio-bmi / pyvg
  Importing vg json graphs to Python data structures.
  ☆10Updated 4 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• ratschlab / tensor-sketch-alignment
  Code for the paper Aligning Distant Sequences to Graphs using Long Seed Sketches.
  ☆13Updated 2 years ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆49Updated 3 years ago