zhanxw / checkVCF
Sanity check Variant Call Format (VCF) files.
☆37Updated 9 years ago
Alternatives and similar repositories for checkVCF:
Users that are interested in checkVCF are comparing it to the libraries listed below
- Burden testing against public controls☆50Updated last year
- Report reverse and ambiguous strand SNPs in GWAS data☆33Updated 5 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆48Updated 5 years ago
- Genomes on the Cloud, Mapping & Variant Calling Pipelines☆34Updated 8 years ago
- An awk-like VCF parser☆56Updated last year
- ☆40Updated 7 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- Run Picard on BAM files and collate 90 metrics into one file.☆41Updated 7 years ago
- ☆25Updated 11 months ago
- A wrapper for liftOver for converting plink genotype data between different genome reference builds☆51Updated 6 years ago
- R package for inferring copy number from read depth☆32Updated 2 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 4 years ago
- Documenting usage and experience with bioinformatic tools☆41Updated 9 years ago
- ☆78Updated 11 years ago
- Collection of CGAT NGS Pipelines☆43Updated 6 years ago
- R package designed to simplify structural variant analysis☆72Updated 3 years ago
- 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
- Enhanced version of the FastQTL QTL mapper☆64Updated 2 years ago
- Relevant papers for CNV and SV approaches☆94Updated 6 months ago
- Battenberg algorithm and associated implementation script☆52Updated 4 years ago
- GTEx analysis scripts☆20Updated 8 years ago
- Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue☆47Updated 3 weeks ago
- Scripts for GWAS association and metaanalysis☆43Updated 4 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆42Updated 3 years ago
- Multi-sample somatic variant caller☆50Updated 3 years ago
- ☆68Updated 2 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- CNV screening and annotation tool☆25Updated 8 years ago
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated 2 years ago
- Genomic Association Tester☆31Updated 2 years ago