Alternatives and similar repositories for GraphChainer:

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

• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆18Updated 7 months ago
• AlgoLab / pangeblocks
  pangenome from maximal blocks in an MSA
  ☆11Updated 4 months ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆36Updated last year
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆26Updated 7 months ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• marbl / rukki
  Extracting paths from assembly graphs
  ☆22Updated 8 months ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆22Updated last week
• human-pangenomics / hprc-tutorials
  ☆14Updated 9 months ago
• dubssieg / pancat
  Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions
  ☆32Updated last month
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆22Updated last month
• rchikhi / 2022-pangenome-graphs-intro
  ☆21Updated 3 months ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆16Updated 6 months ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated last month
• marbl / training
  Genome Assembly 102
  ☆13Updated this week
• marschall-lab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆35Updated last week
• fawaz-dabbaghieh / bubble_gun
  ☆40Updated 2 months ago
• AlgoLab / RecGraph
  Optimal sequence-to-graph alignment with recombinations
  ☆25Updated last week
• algbio / SRFAligner
  ☆13Updated last week
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 4 months ago
• at-cg / RAFT
  ☆21Updated 4 months ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆21Updated 5 months ago
• jessicabonnie / dandd
  Tool to estimate deltas for sequence sets and answer questions about relative contribution
  ☆21Updated this week
• ablab / stringdecomposer
  Tool for decomposition centromeric assemblies and long reads into monomers
  ☆34Updated 2 years ago
• mkirsche / Grafter
  Scaffolding with Ultralong Reads
  ☆15Updated 4 years ago
• magspho / hifieval
  a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).
  ☆21Updated last year
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated 8 months ago
• rchikhi / rust-seq2kminmers
  Iterate k-min-mers from a DNA sequence in Rust
  ☆13Updated 9 months ago
• chfi / gfainject
  ☆14Updated last year
• thegenemyers / PHASE-MERS
  Utilities to detect and profile `het-kmers`
  ☆11Updated 5 months ago