Alternatives and similar repositories for svaba

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

• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated 2 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆156Updated 3 years ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆175Updated last year
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆204Updated 4 years ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆136Updated 4 years ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆279Updated 8 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆201Updated this week
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆233Updated 3 years ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆286Updated 4 months ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆207Updated 4 years ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆263Updated last year
• genome / pindel
  Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …
  ☆176Updated 6 years ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆142Updated 3 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆139Updated 4 years ago
• abyzovlab / CNVpytor
  a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads
  ☆210Updated 4 months ago
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆148Updated 5 months ago
• GregoryFaust / samblaster
  samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.
  ☆238Updated 4 years ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆226Updated last year
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆237Updated last year
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆203Updated last month
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆323Updated this week
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆257Updated 6 months ago
• alimanfoo / pysamstats
  A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …
  ☆195Updated last week
• mozack / abra2
  ABRA2
  ☆95Updated 3 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆285Updated last year
• epi2me-labs / wf-human-variation
  ☆150Updated 2 weeks ago
• genome / breakdancer
  SV detection from paired end reads mapping
  ☆118Updated 6 years ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆206Updated 2 years ago
• adamewing / bamsurgeon
  tools for adding mutations to existing .bam files, used for testing mutation callers
  ☆247Updated last year