umccr / vcf_stuff
📊Evaluating, filtering, comparing, and visualising VCF
☆26Updated last year
Related projects: ⓘ
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆28Updated 5 years ago
- DriverPower☆25Updated 3 months ago
- This is a pipeline for variant annotation in the diagnosis of rare genetic disorders. It relies on open source data and has instructions …☆17Updated last year
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆28Updated last year
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 5 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆40Updated 2 years ago
- a set of NGS pipelines☆24Updated last week
- GTEx analysis scripts☆20Updated 7 years ago
- Filter and prioritize fusion calls☆20Updated last month
- Advanced plotting functions for CNV data generated by CNV-Seq and Control Freec☆13Updated 4 years ago
- Filters for false-positive mutation calls in NGS☆30Updated 5 years ago
- a parallel R package for detecting copy-number alterations from short sequencing reads☆22Updated 3 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to …☆20Updated 2 years ago
- Codes and Data for FFPEsig manuscript☆15Updated 8 months ago
- VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…☆22Updated 4 years ago
- hands-on for NGS/SNParray CNV call trainning☆17Updated 2 years ago
- Utility functions for FACETS☆33Updated 5 months ago
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆21Updated 4 years ago
- An R package for predicting HR deficiency from mutation contexts☆26Updated last year
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆26Updated last month
- RNA-seq workflow: differential transcript usage☆20Updated last year
- A set of tools to annotate VCF files with expression and readcount data☆25Updated 2 weeks ago
- ☆13Updated 8 years ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- Tutorials covering various topics in genomic data analysis.☆16Updated 5 years ago
- ☆21Updated 3 months ago
- Easy Copy Number !☆20Updated 2 years ago
- ☆32Updated 5 years ago
- ☆13Updated 7 years ago