Alternatives and similar repositories for paf2chain

Users that are interested in paf2chain are comparing it to the libraries listed below

• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆40Updated last year
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 5 months ago
• mrvollger / NucFreq
  ☆38Updated 3 weeks ago
• MoinSebi / gretl
  Statistics and analysis for variation graphs
  ☆45Updated 10 months ago
• OmarOakheart / nPhase
  Ploidy agnostic phasing pipeline and algorithm
  ☆48Updated last year
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆26Updated last week
• thegenemyers / MERQURY.FK
  FastK based version of Merqury
  ☆28Updated last month
• mrvollger / SafFire
  ☆31Updated 5 months ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated last year
• agshumate / LiftoffTools
  ☆28Updated 2 years ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆32Updated 4 years ago
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆36Updated last week
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆32Updated 2 weeks ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 4 months ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 6 months ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆47Updated 4 years ago
• ablab / stringdecomposer
  Tool for decomposition centromeric assemblies and long reads into monomers
  ☆35Updated 3 years ago
• human-pangenomics / hprc-tutorials
  ☆18Updated last year
• vgteam / sv-genotyping-paper
  ☆31Updated 5 years ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆29Updated last year
• rchikhi / 2022-pangenome-graphs-intro
  ☆28Updated last year
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆34Updated 2 years ago
• iganna / pannagram
  ☆27Updated this week
• mktle / colorSV
  somatic SV calling on matched tumor-normal co-assembly graphs
  ☆22Updated last year
• GTPB / CPANG22
  Computational Pangenomics
  ☆17Updated 3 years ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• pangenome / impg
  implicit pangenome graph
  ☆77Updated this week
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆31Updated 4 years ago