Alternatives and similar repositories for open-cravat:

Users that are interested in open-cravat are comparing it to the libraries listed below

• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆76Updated 2 months ago
• gatk-workflows / seq-format-conversion
  Workflows for converting between sequence data formats
  ☆38Updated 3 years ago
• imgag / megSAP
  a Medical Genetics Sequence Analysis Pipeline
  ☆80Updated this week
• imgag / ClinCNV
  Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
  ☆82Updated 2 weeks ago
• Illumina / ExpansionHunterDenovo
  A suite of tools for detecting expansions of short tandem repeats
  ☆80Updated last year
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆128Updated 8 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆111Updated 7 months ago
• Clinical-Genomics / MIP
  Mutation Identification Pipeline. Read the latest documentation:
  ☆44Updated 11 months ago
• ding-lab / CharGer
  Characterization of Germline variants
  ☆98Updated 2 years ago
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆100Updated 9 months ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆109Updated 6 years ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆157Updated 5 months ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated last week
• freeseek / score
  Tools to work with GWAS-VCF summary statistics files
  ☆113Updated 4 months ago
• brentp / bwa-meth
  fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
  ☆147Updated 5 months ago
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆80Updated last week
• jeremymcrae / liftover
  liftover for python, made fast with cython
  ☆86Updated 2 months ago
• griffithlab / pVAC-Seq
  DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools
  ☆61Updated 5 years ago
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆145Updated last year
• nf-core / raredisease
  Call and score variants from WGS/WES of rare disease patients.
  ☆94Updated this week
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆123Updated 6 months ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆96Updated 3 years ago
• gatk-workflows / gatk4-exome-analysis-pipeline
  This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…
  ☆52Updated 4 years ago
• LabTranslationalArchitectomics / riboWaltz
  optimization of ribosome P-site positioning in ribosome profiling data
  ☆48Updated this week
• zwdzwd / sesame
  🍪 SEnsible Step-wise Analysis of DNA MEthylation BeadChips
  ☆69Updated last month
• sheynkman-lab / Long-Read-Proteogenomics
  A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
  ☆43Updated 2 years ago
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆86Updated last year
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆179Updated this week
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆111Updated 2 years ago
• Zhong-Lab-UCSD / Genomic-Interactive-Visualization-Engine
  Genomic Interactive Visualization Engine
  ☆145Updated 2 years ago