Alternatives and similar repositories for VarDictJava:

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

• AstraZeneca-NGS / VarDict
  VarDict
  ☆194Updated last year
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆267Updated last year
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆134Updated 3 years ago
• OpenGene / GeneFuse
  Gene fusion detection and visualization
  ☆122Updated 3 years ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆150Updated 2 years ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆158Updated 7 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆183Updated this week
• Illumina / Nirvana
  The nimble & robust variant annotator
  ☆176Updated 10 months ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆196Updated 3 years ago
• imgag / ClinCNV
  Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
  ☆82Updated last month
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆156Updated last year
• hartwigmedical / hmftools
  Various algorithms for analysing genomics data
  ☆218Updated this week
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 5 years ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆248Updated 2 weeks ago
• zwdzwd / transvar
  TransVar - multiway annotator for precision medicine
  ☆124Updated last year
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆244Updated last week
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆310Updated 9 months ago
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆197Updated this week
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 2 years ago
• shiquan / bamdst
  a lightweight bam file depth statistical tool
  ☆150Updated 6 months ago
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆196Updated last year
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆201Updated 4 years ago
• genome-in-a-bottle / giab_latest_release
  This repository contains information about latest release from Genome in a Bottle project
  ☆73Updated 5 years ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆111Updated 3 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆112Updated 8 months ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆215Updated 3 years ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆128Updated 4 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆96Updated 10 months ago
• CenterForMedicalGeneticsGhent / WisecondorX
  WisecondorX — An evolved WISECONDOR
  ☆96Updated 6 months ago