Alternatives and similar repositories for vcfanno

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

• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆317Updated 3 years ago
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆325Updated 3 months ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆258Updated 2 years ago
• arq5x / lumpy-sv
  lumpy: a general probabilistic framework for structural variant discovery
  ☆333Updated 3 years ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆272Updated 3 months ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆351Updated 4 months ago
• pezmaster31 / bamtools
  C++ API & command-line toolkit for working with BAM data
  ☆429Updated 3 months ago
• hall-lab / speedseq
  A flexible framework for rapid genome analysis and interpretation
  ☆317Updated 2 years ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆257Updated last year
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆243Updated 2 years ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆545Updated last year
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆200Updated 4 years ago
• adamewing / bamsurgeon
  tools for adding mutations to existing .bam files, used for testing mutation callers
  ☆244Updated 10 months ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆262Updated this week
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆197Updated last year
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆163Updated 2 years ago
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆318Updated this week
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆227Updated 3 years ago
• dellytools / delly
  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
  ☆485Updated last month
• pcingola / SnpEff
  ☆290Updated last week
• Illumina / strelka
  Strelka2 germline and somatic small variant caller
  ☆381Updated 3 years ago
• genome-in-a-bottle / giab_data_indexes
  This repository contains data indexes from NIST's Genome in a Bottle project.
  ☆256Updated last year
• lh3 / wgsim
  Reads simulator
  ☆281Updated 4 years ago
• OpenGene / AfterQC
  Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
  ☆212Updated 5 years ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆193Updated this week
• fulcrumgenomics / fgbio
  Tools for working with genomic and high throughput sequencing data.
  ☆344Updated last month
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆375Updated last week
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆398Updated last month
• WGLab / InterVar
  A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline
  ☆197Updated 2 years ago