Alternatives and similar repositories for parakit

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

• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 4 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆29Updated last year
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆35Updated last week
• human-pangenomics / hprc-tutorials
  ☆19Updated last year
• gymrek-lab / LongTR
  Tandem repeat genotyping with long reads
  ☆35Updated 4 months ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆31Updated 7 months ago
• AndreaGuarracino / 1000G-ONT-F100-PGGB
  PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium
  ☆12Updated 10 months ago
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 4 years ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆33Updated 4 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated 2 weeks ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆24Updated last month
• jts / mbtools
  ☆14Updated 2 years ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆27Updated 3 years ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆30Updated last year
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• mktle / colorSV
  somatic SV calling on matched tumor-normal co-assembly graphs
  ☆22Updated last year
• hitbc / gcSV
  ☆22Updated 3 weeks ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆30Updated 4 years ago
• kcleal / svbench
  Benchmark structural variant calls against a reference set
  ☆18Updated 2 weeks ago
• ekg / gimbricate
  recompute GFA link overlaps
  ☆25Updated 3 years ago
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆14Updated 2 years ago
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆21Updated last year
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆29Updated last year
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated 7 months ago
• marbl / training
  Genome Assembly 102
  ☆17Updated 9 months ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆27Updated 3 weeks ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆20Updated last year