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
  ☆244Updated 3 months ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆254Updated 2 years ago
• STAR-Fusion / STAR-Fusion
  STAR-Fusion codebase
  ☆243Updated last week
• WGLab / InterVar
  A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline
  ☆196Updated 2 years ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆319Updated 3 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆160Updated 2 years ago
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆389Updated 7 months ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆198Updated last year
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆230Updated this week
• pcingola / SnpEff
  ☆279Updated 5 months ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆271Updated last year
• Illumina / strelka
  Strelka2 germline and somatic small variant caller
  ☆375Updated 3 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆234Updated 2 months ago
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆151Updated 10 months ago
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆199Updated last year
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆214Updated 3 months ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆231Updated this week
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆242Updated 2 years ago
• gatk-workflows / gatk4-data-processing
  Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools
  ☆153Updated 2 years ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆254Updated 5 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆189Updated this week
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆215Updated this week
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆137Updated 5 years ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆224Updated 3 years ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆261Updated last week
• VanLoo-lab / ascat
  ASCAT R package
  ☆184Updated 3 months ago
• OpenGene / AfterQC
  Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
  ☆212Updated 5 years ago
• RealTimeGenomics / rtg-tools
  RTG Tools: Utilities for accurate VCF comparison and manipulation
  ☆320Updated last month
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆269Updated 5 months ago
• al2na / methylKit
  R package for DNA methylation analysis
  ☆232Updated 4 months ago