Alternatives and similar repositories for vgp-tools

Users that are interested in vgp-tools are comparing it to the libraries listed below

• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆45Updated 4 months ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆15Updated 7 years ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆49Updated 4 years ago
• natir / fpa
  Filter of Pairwise Alignement
  ☆44Updated 3 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• walaj / svlib
  Toolkit for extracting SVs from long sequences and benchmarking variant callers
  ☆13Updated 8 years ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated last week
• rvaser / rala
  Layout module for raw de novo genome assembly of long uncorrected reads.
  ☆21Updated 4 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 6 months ago
• langmead-lab / vargas
  ☆24Updated 3 months ago
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 3 months ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆50Updated 6 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• kuleshov / architect
  Scaffolding genomes using synthetic long read clouds
  ☆20Updated 9 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆23Updated 3 weeks ago
• maxrossi91 / moni
  MONI: A Pangenomic Index for Finding MEMs
  ☆37Updated 8 months ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• jts / mbtools
  ☆14Updated 2 years ago
• SchulzLab / ORNA
  Fast in-silico normalization algorithm for NGS data
  ☆23Updated 4 years ago
• rchikhi / 2022-pangenome-graphs-intro
  ☆28Updated last year
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆28Updated last year
• benedictpaten / marginPhase
  ☆35Updated 5 years ago
• uio-bmi / two_step_graph_mapper
  ☆21Updated 6 years ago