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"
  ☆287Updated last week
• brentp / goleft
  goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary
  ☆221Updated 9 months ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆261Updated last week
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆254Updated last year
• Illumina / Nirvana
  The nimble & robust variant annotator
  ☆182Updated last year
• brentp / vcfanno
  annotate a VCF with other VCFs/BEDs/tabixed files
  ☆379Updated 2 weeks ago
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆196Updated last week
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆195Updated last year
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆269Updated last month
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆247Updated 2 weeks ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆344Updated 2 months ago
• joiningdata / lollipops
  Lollipop-style mutation diagrams for annotating genetic variations.
  ☆191Updated 9 months ago
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆153Updated 3 years ago
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆155Updated 3 years ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆162Updated 10 months ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆133Updated 2 years ago
• OpenGene / MutScan
  Detect and visualize target mutations by scanning FastQ files directly
  ☆153Updated 3 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆160Updated 2 years ago
• ryanlayer / giggle
  Interval data structure
  ☆233Updated 7 months ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆200Updated 4 years ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆189Updated this week
• shiquan / bamdst
  a lightweight bam file depth statistical tool
  ☆150Updated 10 months ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆313Updated 4 months ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆319Updated 3 years ago
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆202Updated 4 years ago
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆127Updated 2 years ago
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆138Updated 4 years ago
• SciLifeLab / Sarek
  Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
  ☆133Updated 5 years ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆220Updated 5 months ago