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
  ☆36Updated last year
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆14Updated 7 months ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆23Updated 2 months ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 2 years ago
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆18Updated 4 months ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆12Updated 2 years ago
• AntonBankevich / jumboDB
  De Bruijn graph construction for large k.
  ☆18Updated 3 years ago
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆29Updated 2 weeks ago
• ryought / mummer-idotplot
  Generate interactive dotplot from mummer4 output using plotly
  ☆27Updated 5 years ago
• marbl / training
  Genome Assembly 102
  ☆14Updated this week
• magspho / hifieval
  a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).
  ☆21Updated last year
• maojanlin / biastools
  Reference bias measuring toolkit
  ☆18Updated last week
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated 10 months ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆18Updated 10 months ago
• PacificBiosciences / actc
  Align subreads to ccs reads
  ☆13Updated last year
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 3 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 8 months ago
• gymrek-lab / LongTR
  Tandem repeat genotyping with long reads
  ☆28Updated 2 months ago
• bluenote-1577 / devider
  Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
  ☆20Updated 5 months ago
• MoinSebi / gfa2bin
  ☆19Updated 4 months ago
• LankyCyril / edgecase
  A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…
  ☆16Updated last year
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆33Updated 4 years ago
• hitbc / gcSV
  ☆17Updated last month
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 6 months ago
• human-pangenomics / hprc-tutorials
  ☆17Updated last year
• AndreaGuarracino / 1000G-ONT-F100-PGGB
  PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium
  ☆12Updated 3 weeks ago
• Walfred-MA / Ctyper
  Genotyping of copy number sensitive allele-specific haplotypes
  ☆16Updated 2 months ago
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 4 years ago
• davidebolo1993 / cosigt
  ☆17Updated 2 weeks ago