mskilab-org / fishHookLinks
R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after correcting for genomic covariates.
☆30Updated 2 years ago
Alternatives and similar repositories for fishHook
Users that are interested in fishHook are comparing it to the libraries listed below
Sorting:
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆71Updated last year
- Utility functions for FACETS☆38Updated last year
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- An R package for predicting HR deficiency from mutation contexts☆29Updated 6 months ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆36Updated 3 years ago
- A framework to infer mutational signatures in cancer over time☆55Updated 6 years ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Updated 6 years ago
- Irons out wrinkles in noisy coverage data using robust PCA☆15Updated 3 months ago
- R package for reading in & working with NucleoATAC outputs☆26Updated 6 years ago
- A toolkit for working with ATAC-seq data.☆24Updated last year
- Functional genomics and genome-wide association studies☆67Updated 7 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated 5 months ago
- A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.☆41Updated last week
- Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests☆49Updated last year
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- Allele-Specific Expression by Single-Cell RNA Sequencing☆29Updated 4 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆31Updated 2 years ago
- ☆13Updated 7 years ago
- Lightweight Iterative Gene set Enrichment in R☆57Updated 10 months ago
- An R package to time somatic mutations☆62Updated 4 years ago
- ☆38Updated 4 years ago
- RNA-seq workflow: differential transcript usage☆22Updated 2 years ago
- CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links☆41Updated 9 months ago
- Robust Allele Specific Quantification and quality controL☆40Updated 3 years ago
- ☆36Updated 6 years ago
- highly-efficient & lightweight mutation signature matrix aggregation☆19Updated 3 years ago
- Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.☆70Updated 4 years ago
- A small R package to make sequencing read coverage plots in R.☆39Updated 3 years ago
- Single Cell Analysis Automated Workflow☆27Updated 2 years ago
- ChIP-seq DC and QC Pipeline☆35Updated 4 years ago