Alternatives and similar repositories for jtk

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

• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 3 weeks ago
• ekg / pafplot
  base-level dotplots from PAF alignments
  ☆26Updated last month
• AntonBankevich / jumboDB
  De Bruijn graph construction for large k.
  ☆18Updated 4 years ago
• marbl / training
  Genome Assembly 102
  ☆15Updated 4 months ago
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆13Updated 3 years ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated 2 weeks ago
• magspho / hifieval
  a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).
  ☆21Updated last year
• chfi / pafview
  ☆17Updated 7 months ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated 9 months ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆24Updated 2 months ago
• PacificBiosciences / trgt-denovo
  De novo tandem repeat calling from PacBio HiFi data
  ☆18Updated 2 months ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆26Updated 2 years ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆17Updated last year
• ktan8 / nanopore_telomere_basecall
  ☆14Updated 2 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 11 months ago
• ryought / mummer-idotplot
  Generate interactive dotplot from mummer4 output using plotly
  ☆28Updated 5 years ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆26Updated last year
• lrobidou / KFC
  ☆18Updated 6 months ago
• bluenote-1577 / devider
  Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
  ☆25Updated 9 months ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated last month
• Walfred-MA / Ctyper
  Genotyping of copy number sensitive allele-specific haplotypes
  ☆16Updated last month
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 8 months ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆18Updated last year
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆13Updated 2 years ago
• Adamtaranto / TIRmite
  Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
  ☆10Updated last month
• MoinSebi / gfa2bin
  ☆25Updated 3 weeks ago
• gymrek-lab / LongTR
  Tandem repeat genotyping with long reads
  ☆30Updated 3 months ago
• Gaius-Augustus / clamsa
  ClaMSA (Classify Multiple Sequence Alignments).
  ☆13Updated 9 months ago
• hitbc / gcSV
  ☆21Updated 6 months ago