Alternatives and similar repositories for hal2vg

Users that are interested in hal2vg are comparing it to the libraries listed below

• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• MoinSebi / gfa2bin
  ☆25Updated 2 months ago
• ablab / stringdecomposer
  Tool for decomposition centromeric assemblies and long reads into monomers
  ☆35Updated 3 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆25Updated 4 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
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆32Updated 4 years ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated last month
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 4 months ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆27Updated last year
• davidebolo1993 / cosigt
  COsine-based SImilarity Genotyper using pangenomes
  ☆21Updated this week
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 3 years ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆26Updated this week
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated last year
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 10 months ago
• at-cg / RAFT
  ☆28Updated last year
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆28Updated 4 years ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 4 months ago
• cumtr / PG-SCUnK
  PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers
  ☆19Updated last month
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆27Updated 3 years ago
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆27Updated 4 months ago
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆21Updated 10 months ago
• human-pangenomics / hprc-tutorials
  ☆18Updated last year
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 4 years ago
• nextgenusfs / redmask
  Genome assembly soft-masking using Red (REpeat Detector)
  ☆18Updated 6 years ago
• Zhuxitong / ppsPCP
  A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline
  ☆27Updated 4 years ago
• bcgsc / goldrush
  Linear-time de novo Long Read Assembler
  ☆41Updated 8 months ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆29Updated last year
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 6 months ago