Alternatives and similar repositories for GraphChainer

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

• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆40Updated 2 years ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆20Updated last year
• AdamCicherski / AlfaPang
  AlfaPang builds pangenome graphs without alignments or references.
  ☆14Updated last month
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆29Updated last year
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 3 years ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated last year
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆17Updated last year
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆26Updated 3 weeks ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated last month
• marbl / training
  Genome Assembly 102
  ☆17Updated 8 months ago
• marbl / rukki
  Extracting paths from assembly graphs
  ☆24Updated last year
• MoinSebi / gfa2bin
  ☆28Updated 4 months ago
• ekg / pafplot
  base-level dotplots from PAF alignments
  ☆28Updated 3 months ago
• ldenti / palss
  ☆23Updated 3 months ago
• cumtr / PG-SCUnK
  PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers
  ☆21Updated last month
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆21Updated last year
• LankyCyril / edgecase
  A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…
  ☆16Updated last year
• nadegeguiglielmoni / GraphUnzip
  Unzip assembly graphs with Hi-C data and/or long reads.
  ☆27Updated last year
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• davidebolo1993 / cosigt
  COsine SImilarity-based Genotyper using pangenomes
  ☆24Updated last week
• chfi / gfainject
  ☆17Updated 2 years ago
• lrobidou / KFC
  ☆19Updated 10 months ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 7 months ago
• bluenote-1577 / devider
  Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
  ☆39Updated 3 months ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆36Updated 3 weeks ago
• TravisWheelerLab / BATH
  Better Alignments with Translated HMMER
  ☆24Updated this week
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 8 months ago
• at-cg / RAFT
  ☆30Updated last year
• tlemane / kmdiff
  Differential k-mer analysis
  ☆39Updated last year
• mkirsche / Grafter
  Scaffolding with Ultralong Reads
  ☆15Updated 5 years ago