Alternatives and similar repositories for gaftools

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

• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 9 months ago
• w-gao / pgv
  A web-based, interactive pangenome visualization tool
  ☆21Updated 2 years ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆24Updated this week
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 3 weeks ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 6 months ago
• asylvz / SVarp
  Phased structural variant discovery in pangenomes
  ☆34Updated last year
• human-pangenomics / hprc-tutorials
  ☆17Updated last year
• rchikhi / 2022-pangenome-graphs-intro
  ☆28Updated 8 months ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 2 weeks ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 3 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• mktle / colorSV
  somatic SV calling on matched tumor-normal co-assembly graphs
  ☆22Updated 10 months ago
• tprodanov / locityper
  Targeted genotyper for complex polymorphic genes
  ☆20Updated 2 weeks ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 10 months ago
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆27Updated 6 months ago
• pangenome / pgge
  the pangenome graph evaluator
  ☆27Updated 4 years ago
• GTPB / CPANG22
  Computational Pangenomics
  ☆17Updated 3 years ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆13Updated 2 years ago
• MoinSebi / gfa2bin
  ☆24Updated 6 months ago
• ldenti / palss
  ☆21Updated this week
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 4 years ago
• yoshihikosuzuki / ClassPro
  A K-mer classifier for HiFi reads
  ☆9Updated last year
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆49Updated 4 years ago
• lh3 / gffio
  ☆32Updated 2 years ago
• hitbc / gcSV
  ☆21Updated 3 months ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆37Updated last year
• davidebolo1993 / cosigt
  ☆20Updated last week
• cumtr / PG-SCUnK
  PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers
  ☆18Updated 3 weeks ago
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆38Updated 8 months ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆23Updated 7 months ago