Alternatives and similar repositories for VarDictJava

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

• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated last year
• mozack / abra2
  ABRA2
  ☆95Updated 3 years ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆203Updated 4 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆139Updated 4 years ago
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 3 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• genome / pindel
  Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …
  ☆174Updated 5 years ago
• zwdzwd / transvar
  TransVar - multiway annotator for precision medicine
  ☆125Updated 2 years ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆249Updated 2 months ago
• Illumina / Nirvana
  The nimble & robust variant annotator
  ☆188Updated last year
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆155Updated 3 years ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆143Updated 2 years ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆173Updated last year
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆148Updated 3 months ago
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆117Updated 6 years ago
• OpenGene / GeneFuse
  Gene fusion detection and visualization
  ☆127Updated 3 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆99Updated last year
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆136Updated last year
• imgag / ClinCNV
  Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
  ☆91Updated 2 months ago
• CenterForMedicalGeneticsGhent / WisecondorX
  WisecondorX — An evolved WISECONDOR
  ☆108Updated 2 weeks ago
• genome-in-a-bottle / giab_latest_release
  This repository contains information about latest release from Genome in a Bottle project
  ☆75Updated 6 years ago
• adamewing / bamsurgeon
  tools for adding mutations to existing .bam files, used for testing mutation callers
  ☆247Updated last year
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆280Updated 6 months ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆136Updated 4 years ago
• hartwigmedical / hmftools
  Various algorithms for analysing genomics data
  ☆255Updated this week
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆140Updated 3 months ago
• ding-lab / msisensor
  microsatellite instability detection using tumor only or paired tumor-normal data
  ☆132Updated 4 years ago
• genome / analysis-workflows
  Open workflow definitions for genomic analysis from MGI at WUSM.
  ☆104Updated 5 months ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆118Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆117Updated last year