Alternatives and similar repositories for SVDSS

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

• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated 2 years ago
• jts / smrest
  Tumour-only somatic mutation calling using long reads
  ☆26Updated 7 months ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 5 months ago
• micahvista / VACmap
  VACmap: a long-read aligner specifically designed for complex structural variation discovery
  ☆35Updated this week
• kage-genotyper / kage
  Alignment-free genotyper for SNPs and short indels, implemented in Python.
  ☆49Updated 2 months ago
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆65Updated 2 months ago
• MeHelmy / princess
  ☆80Updated 3 months ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆51Updated 2 years ago
• mktle / colorSV
  somatic SV calling on matched tumor-normal co-assembly graphs
  ☆22Updated 10 months ago
• monarch-initiative / SvAnna
  Efficient and accurate pathogenicity prediction for coding and regulatory structural variants in long-read genome sequencing
  ☆37Updated 11 months ago
• lh3 / calN50
  Compute N50/NG50 and auN/auNG
  ☆32Updated last year
• 1kg-ont-vienna / sv-analysis
  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
  ☆25Updated last month
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆34Updated this week
• ACEnglish / kanpig
  Kmer Analysis of Pileups for Genotyping
  ☆29Updated last month
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• smehringer / SViper
  Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
  ☆32Updated 2 years ago
• PacificBiosciences / HiFiCNV
  Copy number variant caller and depth visualization utility for PacBio HiFi reads
  ☆42Updated 7 months ago
• PacificBiosciences / MethBat
  A battery of methylation tools for PacBio HiFi reads
  ☆36Updated 2 months ago
• maickrau / ribotin
  ☆35Updated 2 weeks ago
• hitbc / gcSV
  ☆21Updated 3 months ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago
• mcfrith / tandem-genotypes
  ☆48Updated 11 months ago
• human-pangenomics / hprc-tutorials
  ☆17Updated last year
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆28Updated 8 months ago
• agshumate / LiftoffTools
  ☆27Updated last year
• kensung-lab / INSurVeyor
  An insertion caller for Illumina paired-end WGS data.
  ☆23Updated 10 months ago