Alternatives and similar repositories for HLA-zoo:

Users that are interested in HLA-zoo are comparing it to the libraries listed below

• rchikhi / 2022-pangenome-graphs-intro
  ☆21Updated 4 months ago
• marschall-lab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated this week
• mlin / gfabase
  GFA insert into GenomicSQLite
  ☆48Updated 3 years ago
• lh3 / miniwfa
  A reimplementation of the WaveFront Alignment algorithm at low memory
  ☆49Updated 8 months ago
• ekg / dozyg
  sequence to graph mapper
  ☆11Updated 3 years ago
• pangenome / pgge
  the pangenome graph evaluator
  ☆24Updated 3 years ago
• lh3 / pubLRasm
  ☆17Updated 4 years ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆23Updated 3 weeks ago
• ryought / mummer-idotplot
  Generate interactive dotplot from mummer4 output using plotly
  ☆26Updated 4 years ago
• AlgoLab / RecGraph
  Optimal sequence-to-graph alignment with recombinations
  ☆28Updated this week
• jltsiren / gbwt-rs
  GBWT in Rust
  ☆42Updated 2 months ago
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆25Updated 2 months ago
• broadinstitute / poasta
  Fast and exact gap-affine partial order alignment
  ☆47Updated 2 months ago
• jermp / fulgor
  Fulgor is a fast and space-efficient colored de Bruijn graph index.
  ☆49Updated this week
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆33Updated 4 years ago
• chfi / rs-handlegraph
  Rust implementation of VG handle graph
  ☆20Updated last year
• Kmer-File-Format / kff-tools
  ☆17Updated last year
• IndexThePlanet / LoganSearch
  A k-mer search engine for all Sequence Read Archive public accessions
  ☆20Updated 3 months ago
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆32Updated 2 years ago
• ParBLiSS / PaSGAL
  Parallel Sequence to Graph Alignment
  ☆35Updated 2 years ago
• MoinSebi / gretl
  Statistics and analysis for variation graphs
  ☆37Updated 2 months ago
• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆31Updated 2 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆36Updated last year
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆22Updated 3 weeks ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆21Updated 6 months ago
• pangenome / pgvf-spec
  Pangenome Graph Variation Format (PGVF)
  ☆18Updated 4 years ago
• natir / rustyread
  A long read simulator based on badread idea
  ☆20Updated 2 years ago
• ban-m / jtk
  JTK -- a regional diploid genome assembler
  ☆24Updated 4 months ago