Alternatives and similar repositories for rHAT:

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

• isovic / minialign
  Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.
  ☆10Updated 7 years ago
• thegenemyers / DAMAPPER
  Long read to reference genome mapping tool
  ☆13Updated last year
• HongzheGuo / deBGA
  de Bruijn Graph-based read aligner
  ☆33Updated 6 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 8 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 3 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• hitbc / LAMSA
  Long Approximate Matches-based Split Aligner
  ☆13Updated 8 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 6 years ago
• VGP / vgp-tools
  ☆28Updated 2 weeks ago
• hitbc / deSAMBA
  deSAMBA: fast and accurate classification of metagenomics long reads with sparse approximate matches
  ☆10Updated 11 months ago
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 4 years ago
• walaj / svlib
  Toolkit for extracting SVs from long sequences and benchmarking variant callers
  ☆13Updated 8 years ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆24Updated last week
• medvedevgroup / BubbZ
  ☆15Updated 4 years ago
• PROBIC / mSWEEP
  mSWEEP High-resolution sweep metagenomics using fast probabilistic inference
  ☆14Updated 6 months ago
• kuleshov / architect
  Scaffolding genomes using synthetic long read clouds
  ☆20Updated 8 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated last year
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated 11 months ago
• BilkentCompGen / hercules
  Profile HMM-based hybrid error correction algorithm for long reads
  ☆20Updated 6 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
• uio-bmi / two_step_graph_mapper
  ☆21Updated 5 years ago
• svm-zhang / AGOUTI
  Annotated Genome Optimization Using Transcriptome Information
  ☆19Updated 4 years ago
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆33Updated 4 years ago
• wen-biao / OM-HiC-scaffolding
  Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data
  ☆20Updated 4 years ago
• benoukraflab / NanoVar---archived
  Archived version 1.0.2
  ☆16Updated 5 years ago
• AlgoLab / malva
  genotyping by Mapping-free ALternate-allele detection of known VAriants
  ☆10Updated 2 years ago
• morisUtokyo / mTR
  tandem repeat finding from erroneous long reads
  ☆15Updated 3 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 4 years ago