Alternatives and similar repositories for doc-ANNOVAR

Users that are interested in doc-ANNOVAR are comparing it to the libraries listed below

• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆256Updated 2 months ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆262Updated 2 years ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆322Updated 3 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated last year
• WGLab / InterVar
  A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline
  ☆203Updated 2 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• STAR-Fusion / STAR-Fusion
  STAR-Fusion codebase
  ☆246Updated 2 months ago
• Illumina / strelka
  Strelka2 germline and somatic small variant caller
  ☆389Updated 3 years ago
• pcingola / SnpEff
  ☆296Updated this week
• gatk-workflows / gatk4-data-processing
  Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools
  ☆159Updated 3 years ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆277Updated 2 years ago
• nf-core / methylseq
  Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair
  ☆183Updated last week
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆252Updated 5 months ago
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆156Updated last week
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆230Updated 3 years ago
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆201Updated 4 months ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆275Updated 2 months ago
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆406Updated 4 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆197Updated this week
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆227Updated 5 months ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆280Updated 6 months ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆250Updated 2 weeks ago
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆245Updated 3 years ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆272Updated last month
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆244Updated this week
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆204Updated last year
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆208Updated 4 years ago
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆329Updated 6 months ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆289Updated last month
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆148Updated 10 years ago