Alternatives and similar repositories for vcfanno:

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

• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆246Updated last week
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆248Updated 8 months ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆314Updated 3 years ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆266Updated last year
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆309Updated 9 months ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆316Updated last year
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆540Updated 8 months ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆248Updated last year
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆156Updated last year
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆197Updated 3 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆194Updated last year
• OpenGene / AfterQC
  Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
  ☆209Updated 4 years ago
• pcingola / SnpEff
  ☆264Updated last month
• luntergroup / octopus
  Bayesian haplotype-based mutation calling
  ☆307Updated this week
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆198Updated 3 years ago
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆197Updated 2 weeks ago
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆240Updated 2 years ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆189Updated last year
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆373Updated last year
• hall-lab / speedseq
  A flexible framework for rapid genome analysis and interpretation
  ☆316Updated 2 years ago
• arq5x / lumpy-sv
  lumpy: a general probabilistic framework for structural variant discovery
  ☆322Updated 2 years ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆214Updated 3 years ago
• ACEnglish / truvari
  Structural variant toolkit for VCFs
  ☆342Updated last week
• fulcrumgenomics / fgbio
  Tools for working with genomic and high throughput sequencing data.
  ☆324Updated this week
• TransDecoder / TransDecoder
  TransDecoder source
  ☆285Updated 5 months ago
• dellytools / delly
  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
  ☆458Updated 2 weeks ago
• igvteam / igv-reports
  Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.
  ☆354Updated 2 months ago
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆381Updated 3 months ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆242Updated 3 months ago
• Ensembl / VEP_plugins
  Plugins for the Ensembl Variant Effect Predictor (VEP)
  ☆144Updated last week