Alternatives and similar repositories for duphold

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

• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆79Updated 2 years ago
• ryanlayer / stix
  Structural Variant Index
  ☆75Updated last year
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 5 years ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 7 years ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆75Updated last year
• Illumina / Polaris
  Data and information about the Polaris study
  ☆54Updated 6 years ago
• vplagnol / ExomeDepth
  ExomeDepth R package for the detection of copy number variants in exomes and gene panels using high throughput DNA sequencing data.
  ☆76Updated 5 months ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated 4 months ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆92Updated 5 years ago
• dantaki / SV2
  Support Vector Structural Variation Genotyper
  ☆58Updated 5 years ago
• nanoporetech / wub
  Tools and software library developed by the ONT Applications group
  ☆64Updated 4 years ago
• ssadedin / bazam
  A read extraction and realignment tool for next generation sequencing data
  ☆103Updated 3 years ago
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆52Updated 5 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆108Updated 2 months ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• Illumina / ExpansionHunterDenovo
  A suite of tools for detecting expansions of short tandem repeats
  ☆83Updated 2 years ago
• nhansen / SVanalyzer
  Tools for the analysis of structural variation in genomes
  ☆81Updated last year
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆115Updated 2 weeks ago
• fakedrtom / SVAFotate
  ☆44Updated last year
• 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
• benedictpaten / marginAlign
  UCSC Nanopore
  ☆44Updated 6 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆152Updated 3 weeks ago
• RCollins13 / CNView
  Visualization and annotation of CNVs from population-scale whole-genome sequencing data
  ☆72Updated 7 years ago
• quinlan-lab / STRling
  Detect novel (and reference) STR expansions from short-read data
  ☆69Updated 3 weeks ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated 2 months ago
• PapenfussLab / StructuralVariantAnnotation
  R package designed to simplify structural variant analysis
  ☆74Updated 4 years ago
• PacificBiosciences / sv-benchmark
  Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data
  ☆51Updated 4 years ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆99Updated last year