ShixiangWang / copynumberLinks
The "copynumber" R package with support for hg38
☆19Updated 2 years ago
Alternatives and similar repositories for copynumber
Users that are interested in copynumber are comparing it to the libraries listed below
Sorting:
- An R package to time somatic mutations☆62Updated 4 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆71Updated last year
- ATAC-seq processing pipeline☆33Updated 3 years ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆34Updated 11 months ago
- ☆38Updated 5 years ago
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆48Updated 10 months ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆41Updated 4 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated last year
- Pipeline for Cut&Tag analysis☆21Updated 2 months ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …☆67Updated 2 weeks ago
- Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis☆20Updated 2 years ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆51Updated 3 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆39Updated 3 years ago
- MutSig2CV from Lawrence et al. 2014☆31Updated 4 years ago
- A toolkit for QC and visualization of ATAC-seq results.☆70Updated 5 months ago
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆20Updated last year
- Dynamics analysis of Alternative PolyAdenylation from RNA-seq☆61Updated last year
- Robust Allele Specific Quantification and quality controL☆39Updated 3 years ago
- Enhanced version of the FastQTL QTL mapper☆66Updated 2 years ago
- R package and Shiny app providing functions for scaling relative copy number to absolute values for shallow whole genome sequencing of ca…☆11Updated 3 years ago
- Tutorial Website☆59Updated 4 years ago
- ☆69Updated last year
- A modular, containerized pipeline for ATAC-seq data processing☆58Updated last month
- mutation(barcode) caller for 10x single cell data☆45Updated 5 years ago
- A preprocessing and QC pipeline for HiChIP data☆39Updated 2 years ago
- Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"☆54Updated 4 years ago
- ☆21Updated this week
- Filtering of PDX samples for mouse derived reads☆28Updated 2 years ago
- SigProfilerPlotting provides a standard tool for displaying all types of mutational signatures as well as all types of mutational pattern…☆48Updated 3 months ago