KarchinLab / 2020plusLinks
Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests
☆50Updated last year
Alternatives and similar repositories for 2020plus
Users that are interested in 2020plus are comparing it to the libraries listed below
Sorting:
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆44Updated 3 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72Updated last year
- ☆44Updated 7 years ago
- ChIP-seq DC and QC Pipeline☆36Updated 4 years ago
- identifying mutational significance in cancer genomes☆62Updated 3 years ago
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆56Updated 4 years ago
- Identifying recurrent mutations in cancer☆39Updated 4 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆43Updated 4 years ago
- ☆35Updated 5 years ago
- Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.☆70Updated 4 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆30Updated 7 years ago
- deepStats: a stastitical toolbox for deeptools and genomic signals☆35Updated 4 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆100Updated 4 years ago
- DriverPower☆26Updated last year
- GTEx analysis scripts☆20Updated 8 years ago
- ☆73Updated 2 years ago
- OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data☆56Updated 3 months ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆37Updated 4 years ago
- Filters for false-positive mutation calls in NGS☆34Updated 6 years ago
- ☆36Updated 6 years ago
- R package for bcbio RNA-seq analysis.☆63Updated last year
- Multi-sample somatic variant caller☆52Updated 4 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆49Updated 6 years ago
- Tutorials covering various topics in genomic data analysis.☆16Updated 7 years ago
- Mutational signature analysis for low statistics SNV data☆64Updated last year
- processes GoT amplicon data and generates a table of metrics☆32Updated 3 years ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆27Updated 3 months ago
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 7 years ago
- Filtering of PDX samples for mouse derived reads☆28Updated 2 weeks ago