Alternatives and similar repositories for rHAT

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

• HongzheGuo / deBGA
  de Bruijn Graph-based read aligner
  ☆33Updated 7 years ago
• isovic / minialign
  Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.
  ☆10Updated 8 years ago
• DixianZhu / deBWT
  A efficient method to construct BWT index of a given DNA sequence, especially useful for gigantic and high similar genome.
  ☆14Updated 9 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 4 years ago
• hitbc / LAMSA
  Long Approximate Matches-based Split Aligner
  ☆13Updated 8 years ago
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆55Updated 3 years ago
• AlgoLab / malva
  genotyping by Mapping-free ALternate-allele detection of known VAriants
  ☆10Updated 2 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 7 years ago
• VGP / vgp-tools
  ☆28Updated 4 months ago
• ITBE-Lab / MA
  The Modular Aligner and The Modular SV Caller
  ☆46Updated 2 years ago
• vgteam / gssw
  efficient alignment of strings to partially ordered string graphs
  ☆33Updated 3 years ago
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 3 years ago
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• walaj / svlib
  Toolkit for extracting SVs from long sequences and benchmarking variant callers
  ☆13Updated 8 years ago
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆33Updated 4 years ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆35Updated 2 years ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• jasperlinthorst / reveal
  Graph based multi genome aligner
  ☆47Updated 3 years ago
• PROBIC / mSWEEP
  mSWEEP High-resolution sweep metagenomics using fast probabilistic inference
  ☆15Updated 10 months ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆26Updated 2 years ago
• BilkentCompGen / hercules
  Profile HMM-based hybrid error correction algorithm for long reads
  ☆21Updated 7 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• kuleshov / architect
  Scaffolding genomes using synthetic long read clouds
  ☆20Updated 8 years ago
• hitbc / deSAMBA
  deSAMBA: fast and accurate classification of metagenomics long reads with sparse approximate matches
  ☆10Updated last year
• ydLiu-HIT / SKSV
  ultrafast structural variation detection from circular consensus sequencing reads
  ☆13Updated 3 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆39Updated 5 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• benoukraflab / NanoVar---archived
  Archived version 1.0.2
  ☆16Updated 5 years ago
• ParBLiSS / PaSGAL
  Parallel Sequence to Graph Alignment
  ☆37Updated 2 years ago