KarchinLab / open-cravat
A modular annotation tool for genomic variants
☆116Updated last month
Alternatives and similar repositories for open-cravat:
Users that are interested in open-cravat are comparing it to the libraries listed below
- Software program for checking sample matching for NGS data☆126Updated 6 months ago
- This package scales the huge gnomAD files to a SQLite database, which is easy and fast to query. It extracts from a gnomAD vcf the minor …☆39Updated 8 months ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆96Updated 3 years ago
- liftover for python, made fast with cython☆83Updated last month
- Finder of Somatic Fusion Genes in RNA-seq data☆143Updated last year
- Annotates variants in MAF with OncoKB annotation.☆126Updated 3 months ago
- Workflows for converting between sequence data formats☆37Updated 3 years ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆76Updated 4 years ago
- phasing and Allele Specific Expression from RNA-seq☆110Updated 6 months ago
- Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data☆80Updated last month
- CADD scripts release for offline scoring. For more information about CADD, please visit our website☆75Updated last month
- Battenberg algorithm and associated implementation script☆52Updated 4 years ago
- Relevant papers for CNV and SV approaches☆94Updated 2 months ago
- fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome☆146Updated 4 months ago
- Snakemake-based workflow for detecting structural variants in genomic data☆79Updated 11 months ago
- CrossMap is a python program to lift over genome coordinates from one genome version to another.☆79Updated 3 months ago
- Genomic Interactive Visualization Engine☆145Updated 2 years ago
- DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools☆61Updated 5 years ago
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆122Updated 4 months ago
- Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders☆138Updated this week
- Plugins for the Ensembl Variant Effect Predictor (VEP)☆143Updated this week
- ☆108Updated last year
- Battenberg R package for subclonal copynumber estimation☆83Updated 2 months ago
- Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.☆124Updated 4 months ago
- xHLA: Fast and accurate HLA typing from short read sequence data☆107Updated last year
- Documentation and description of AWS iGenomes S3 resource.☆109Updated last month
- Copy number calling and variant classification using targeted short read sequencing☆132Updated this week
- GATK RNA-Seq Variant Calling in Nextflow☆132Updated 2 years ago
- A suite of tools for detecting expansions of short tandem repeats☆80Updated last year
- Mutation Identification Pipeline. Read the latest documentation:☆44Updated 10 months ago