Alternatives and similar repositories for pgr-tk

Users that are interested in pgr-tk are comparing it to the libraries listed below

• TimD1 / vcfdist
  vcfdist: Accurately benchmarking phased variant calls
  ☆84Updated 4 months ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆121Updated 4 months ago
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆107Updated 3 weeks ago
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆115Updated last week
• lh3 / dipcall
  Reference-based variant calling pipeline for a pair of phased haplotype assemblies
  ☆105Updated 4 years ago
• fritzsedlazeck / Spectre
  Copy number caller for long read data including SNV utilization
  ☆68Updated 10 months ago
• PacificBiosciences / sawfish
  Joint structural variant and copy number variant caller for HiFi sequencing data
  ☆69Updated 3 months ago
• TF-Chan-Lab / panGraphViewer
  Show pangenome graphs in an easy way
  ☆58Updated 6 months ago
• yangao07 / longcallD
  A local-haplotagging-based small and structural variant caller
  ☆94Updated 3 weeks ago
• pangenome / seqwish
  alignment to variation graph inducer
  ☆156Updated 3 weeks ago
• lh3 / srf
  SRF: Satellite Repeat Finder
  ☆101Updated 2 years ago
• kjenike / panagram
  ☆68Updated last week
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆59Updated 3 years ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆119Updated last week
• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆111Updated last year
• EichlerLab / pav
  Phased assembly variant caller
  ☆132Updated last year
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆95Updated 9 months ago
• PacificBiosciences / HiPhase
  Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads
  ☆82Updated 2 weeks ago
• PacificBiosciences / pb-human-wgs-workflow-snakemake
  DEPRECATED - Workflow for the comprehensive detection and prioritization of variants in human genomes with PacBio HiFi reads
  ☆39Updated 2 years ago
• vollgerlab / StainedGlass
  Make colorful identity heatmaps of genomic sequence
  ☆128Updated last year
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆118Updated 4 months ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆132Updated 2 months ago
• shilpagarg / DipAsm
  ☆78Updated 5 years ago
• PacificBiosciences / jasmine
  Call select base modifications in PacBio HiFi reads
  ☆15Updated 2 months ago
• twolinin / longphase
  ☆122Updated 2 weeks ago
• kishwarshafin / helen
  H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
  ☆73Updated 5 years ago
• 0xTCG / biser
  A fast tool for detecting and decomposing segmental duplications in genome assemblies
  ☆55Updated 6 months ago
• PacificBiosciences / paraphase
  HiFi-based caller for highly similar paralogous genes
  ☆58Updated last week
• yeeus / GCI
  A program for assessing the T2T genome continuity
  ☆92Updated last month
• nanoporegenomics / napu_wf
  WDL workflows for variant calling and assembly using ONT
  ☆38Updated this week