Alternatives and similar repositories for svpack:

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

• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 4 months ago
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 4 months ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆47Updated 5 years ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆27Updated 3 years ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆30Updated 3 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• clemgoub / TypeTE
  Genotyping of segregating mobile elements insertions
  ☆19Updated 3 years ago
• tobiasrausch / vc
  A tutorial on structural variant calling for short read sequencing data
  ☆26Updated 2 months ago
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆31Updated 2 months ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆31Updated last week
• DecodeGenetics / popSTR
  PopSTR - A Population based microsatellite genotyper
  ☆32Updated last year
• pangenome / HPRCyear1v2genbank
  building a human pangenome from the HPRCy1v2 genbank accessioned assemblies
  ☆14Updated last year
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆26Updated 2 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• dellytools / sansa
  Structural variant VCF annotation, duplicate removal and comparison
  ☆29Updated last month
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 4 years ago
• treangenlab / methphaser
  MethPhaser: methylation-based haplotype phasing of human genomes
  ☆43Updated 6 months ago
• mgaleyuw / MeOW
  Automated Detection and Qualification of Differential Methylation
  ☆11Updated last year
• andrewSharo / StrVCTVRE
  StrVCTVRE, a structural variant classifier for exonic deletions and duplications
  ☆18Updated last year
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆15Updated 9 months ago
• HTGenomeAnalysisUnit / SCE-VCF
  Sample Contamination Estimate from VCF
  ☆19Updated 2 months ago
• 1kg-ont-vienna / sv-analysis
  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
  ☆24Updated 3 weeks ago
• mcfrith / dnarrange
  ☆16Updated this week
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 2 years ago
• EliseCoopman / methylmap
  Methylmap is a tool for visualization of modified nucleotide frequencies for large cohort sizes.
  ☆18Updated last week
• fakedrtom / SVAFotate
  ☆39Updated 4 months ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆27Updated 6 months ago
• HudsonAlpha / CSL_public_benchmark
  Location of public benchmarking; primarily final results
  ☆18Updated 2 years ago
• farhangus / Sniffles2_plot
  ☆27Updated 5 months ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆30Updated last year