jrflab / modules
MSKCC Reis-Filho Lab pipeline thingy
☆16Updated 6 months ago
Alternatives and similar repositories for modules:
Users that are interested in modules are comparing it to the libraries listed below
- Codes and Data for FFPEsig manuscript☆15Updated last year
- ☆34Updated 5 years ago
- Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer☆21Updated 4 years ago
- A set of tools to annotate VCF files with expression and readcount data☆29Updated 5 months ago
- DriverPower☆26Updated 3 weeks ago
- DRAGEN Tumor/Normal workflow post-processing☆22Updated last year
- Main repository for Drews et al. (Nature, 2022)☆39Updated last year
- VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…☆22Updated 5 years ago
- Filters for false-positive mutation calls in NGS☆30Updated 5 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆30Updated last year
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 3 years ago
- a parallel R package for detecting copy-number alterations from short sequencing reads☆23Updated 3 years ago
- An R package for predicting HR deficiency from mutation contexts☆27Updated this week
- Multi-sample cancer phylogeny reconstruction☆34Updated 7 years ago
- ☆33Updated 2 years ago
- 📊Evaluating, filtering, comparing, and visualising VCF☆27Updated last year
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆21Updated 4 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.☆29Updated 3 years ago
- Filter and prioritize fusion calls☆20Updated 4 months ago
- ☆13Updated 7 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Parse samtools pileup file to get how many bases and what kind of bases are called☆14Updated 9 months ago
- highly-efficient & lightweight mutation signature matrix aggregation☆19Updated 3 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Updated last year
- A method to identify structural variation from sequencing data in target regions☆31Updated 4 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 2 years ago
- Utility functions for FACETS☆34Updated 10 months ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- ☆11Updated 4 months ago