Alternatives and similar repositories for SpecHap

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

• PacificBiosciences / trgt-denovo
  De novo tandem repeat calling from PacBio HiFi data
  ☆17Updated last month
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 4 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated 10 months ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆28Updated 2 weeks ago
• esrice / trio_binning
  Programs implementing the trio-binning genome assembly method
  ☆19Updated last year
• rlorigro / simple-dotplot
  Very simple and configurable all-in-one dotplot program
  ☆13Updated 2 years ago
• jydu / maffilter
  The MafFilter genome alignment processor
  ☆19Updated 2 months ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 11 months ago
• kolikem / loma
  ☆14Updated last year
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 3 years ago
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆36Updated last week
• hitbc / gcSV
  ☆21Updated 4 months ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆27Updated 3 years ago
• yoshihikosuzuki / ClassPro
  A K-mer classifier for HiFi reads
  ☆9Updated last year
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆26Updated last month
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 2 months ago
• LeilyR / Multi-genome-Reference
  A program to generate a graph which presents a simplified representation of several full length genomes
  ☆13Updated 6 years ago
• gymrek-lab / LongTR
  Tandem repeat genotyping with long reads
  ☆28Updated 2 months ago
• kammoji / gapFinisher
  A reliable gap filling pipeline for draft genomes
  ☆11Updated 5 years ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆36Updated last year
• davidebolo1993 / cosigt
  ☆20Updated last week
• uio-bmi / NucBreak
  Location of structural errors in a genome assembly and structural variations between a pair of genomes
  ☆11Updated 5 years ago
• ablab / stringdecomposer
  Tool for decomposition centromeric assemblies and long reads into monomers
  ☆36Updated 2 years ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 7 months ago
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆31Updated 3 weeks ago
• Gaius-Augustus / clamsa
  ClaMSA (Classify Multiple Sequence Alignments).
  ☆13Updated 8 months ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆24Updated 3 weeks ago
• maojanlin / biastools
  Reference bias measuring toolkit
  ☆18Updated 3 months ago
• ChaissonLab / vamos
  VNTR annotation using motif selection
  ☆35Updated this week