Alternatives and similar repositories for slivar

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

• brentp / somalier
  fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"
  ☆298Updated last month
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆260Updated last year
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆272Updated 2 months ago
• brentp / goleft
  goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary
  ☆224Updated 2 months ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆280Updated 6 months ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆250Updated 2 months ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆199Updated last year
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆155Updated 3 years ago
• brentp / vcfanno
  annotate a VCF with other VCFs/BEDs/tabixed files
  ☆391Updated 3 months ago
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆136Updated 4 years ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆203Updated 4 years ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆197Updated this week
• Illumina / Nirvana
  The nimble & robust variant annotator
  ☆188Updated last year
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆225Updated 10 months ago
• genome-in-a-bottle / giab_data_indexes
  This repository contains data indexes from NIST's Genome in a Bottle project.
  ☆259Updated 2 years ago
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆131Updated 2 months ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆354Updated 7 months ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated last year
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆230Updated 3 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆139Updated 4 years ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆137Updated 3 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆251Updated 5 months ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆160Updated 9 months ago
• mozack / abra2
  ABRA2
  ☆95Updated 3 years ago
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 3 years ago
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆321Updated 2 weeks ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆208Updated 4 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆284Updated 10 months ago
• dnanexus-rnd / GLnexus
  Scalable gVCF merging and joint variant calling for population sequencing projects
  ☆174Updated last year