KarchinLab / 2020plus
Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests
☆49Updated 7 months ago
Alternatives and similar repositories for 2020plus:
Users that are interested in 2020plus are comparing it to the libraries listed below
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- ☆43Updated 6 years ago
- identifying mutational significance in cancer genomes☆60Updated 2 years ago
- Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis☆21Updated last year
- ☆25Updated 9 months ago
- MutSig2CV from Lawrence et al. 2014☆31Updated 4 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆70Updated 9 months ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆42Updated 3 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- GTEx analysis scripts☆20Updated 7 years ago
- 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…☆43Updated 2 years ago
- Single Cell Analysis Automated Workflow☆27Updated last year
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 6 years ago
- Burden testing against public controls☆50Updated last year
- ChIP-seq DC and QC Pipeline☆34Updated 3 years ago
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆34Updated 3 months ago
- ☆38Updated 5 years ago
- How to use CENTIPEDE to determine if a transcription factor is bound.☆26Updated 6 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆55Updated last week
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆65Updated 4 years ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆41Updated 4 years ago
- chia pet analysis software☆25Updated 6 years ago
- processes GoT amplicon data and generates a table of metrics☆28Updated 2 years ago
- ☆67Updated last year
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆33Updated 3 years ago
- Framework for Metastatic And Clonal History INtegrative Analysis☆35Updated 4 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆38Updated 3 years ago
- Breakpoints via assembly - Identifies breaks and attempts to assemble rearrangements in whole genome sequencing data.☆57Updated 7 months ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 3 years ago
- 📊Evaluating, filtering, comparing, and visualising VCF☆27Updated 2 years ago