Alternatives and similar repositories for paf2pav

Users that are interested in paf2pav are comparing it to the libraries listed below

• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆23Updated 8 months ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆24Updated 3 weeks ago
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆27Updated 7 months ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated last month
• AndreaGuarracino / chain2paf
  convert CHAIN format to PAF format
  ☆14Updated 7 months ago
• rchikhi / 2022-pangenome-graphs-intro
  ☆28Updated 9 months ago
• ASLeonard / pandrawer
  Everything but the kitchen sink
  ☆11Updated 5 months ago
• USDA-ARS-GBRU / PanPipes
  Test sets and pipeline scripts for pan-genomic graph analysis
  ☆17Updated 5 months ago
• MoinSebi / gfa2bin
  ☆24Updated 7 months ago
• chfi / gfainject
  ☆16Updated 2 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 9 months ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆28Updated 2 weeks ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆36Updated last year
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 3 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 11 months ago
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 10 months ago
• fritzsedlazeck / sge_mummer
  Scripts to split reference and run mummer in parallel on an SGE cluster
  ☆11Updated 8 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆20Updated 3 months ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆22Updated 4 years ago
• cumtr / PG-SCUnK
  PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers
  ☆18Updated last month
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆17Updated last year
• 6br / hgb
  A read alignment visualization library for long reads
  ☆11Updated 2 years ago
• nextgenusfs / redmask
  Genome assembly soft-masking using Red (REpeat Detector)
  ☆18Updated 6 years ago
• SouthGreenPlatform / panache
  Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…
  ☆45Updated 2 years ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆33Updated 3 weeks ago
• baoxingsong / genomeAlignment
  Compare different genome alignment tools using a wide range of genomes with different complexities.
  ☆13Updated 2 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• pangenome / pgvf-spec
  Pangenome Graph Variation Format (PGVF)
  ☆20Updated 4 years ago
• ryought / mummer-idotplot
  Generate interactive dotplot from mummer4 output using plotly
  ☆27Updated 5 years ago