gerstung-lab / PCAWG-11View external linksLinks
Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)
☆17Jan 15, 2020Updated 6 years ago
Alternatives and similar repositories for PCAWG-11
Users that are interested in PCAWG-11 are comparing it to the libraries listed below
Sorting:
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 4 years ago
- An R package to time somatic mutations☆65Dec 12, 2020Updated 5 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆47Apr 16, 2021Updated 4 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆32Mar 21, 2025Updated 10 months ago
- Integrating LASSO and bootstrapping algorithm to find best prognostic or predictive biomarkers☆21Oct 12, 2022Updated 3 years ago
- ☆83Apr 17, 2025Updated 9 months ago
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14May 28, 2019Updated 6 years ago
- Immune evasion before tumor invasion in early squamous lung cell carcinogenesis☆17Jul 19, 2021Updated 4 years ago
- R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…☆16Feb 17, 2021Updated 4 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆35Jan 28, 2022Updated 4 years ago
- Bayesian non-parametric clustering (BnpC) of binary data with missing values and uneven error rates☆22Jul 11, 2024Updated last year
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆22May 21, 2024Updated last year
- [source] CELLO - Cancer EvoLution toolbox for LOngitudinal data☆17Aug 24, 2020Updated 5 years ago
- ☆12Apr 26, 2020Updated 5 years ago
- R code for Combining gene mutation with gene expression data improves outcome prediction in myelodysplastic syndromes☆13Mar 23, 2016Updated 9 years ago
- Clonal structure identification through penalizing pairwise differences☆11Nov 25, 2025Updated 2 months ago
- Evolutionary frequency visualization tool of temporal data☆24Jan 25, 2022Updated 4 years ago
- Battenberg R package for subclonal copynumber estimation☆95Dec 8, 2025Updated 2 months ago
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 4 years ago
- R package for the identification of cancer-associated mutated genes using gene expression and mutation data.☆10Oct 29, 2021Updated 4 years ago
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆67Dec 25, 2022Updated 3 years ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Apr 10, 2019Updated 6 years ago
- Implementation of FACETS for Terra☆12Jan 20, 2023Updated 3 years ago
- A computational method for comparing cellular profiles with the flexibility to place a higher weight on functional features of interest.☆12Jan 31, 2023Updated 3 years ago
- A set of processes/pipelines for bioinformatics☆14Updated this week
- ☆10Aug 22, 2018Updated 7 years ago
- Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids☆30Aug 8, 2023Updated 2 years ago
- Bayesian mixture models for estimating and clustering cancer cell fractions☆24Dec 20, 2022Updated 3 years ago
- Calculating Tumor microenvironment score☆29Jan 20, 2023Updated 3 years ago
- Prostate Cancer Alteration Signature Analysis https://xsliulab.github.io/PC_CNA_signature/☆13May 17, 2021Updated 4 years ago
- Code and additional processed data for manuscript "Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab"; see for man…☆54Feb 12, 2018Updated 8 years ago
- Reproducing the experiments in the paper☆11Dec 14, 2021Updated 4 years ago
- R scripts used for MYC analyses☆10Jan 30, 2018Updated 8 years ago
- Functions to analyze copy number aberrations in single-cell data☆13Feb 3, 2025Updated last year
- single cell sequencing analysis tutorial☆18Jan 15, 2020Updated 6 years ago
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 years ago
- JEME method for predicting enhancer targets☆11Jul 15, 2017Updated 8 years ago
- Machine learning use cases for teaching☆13Jul 12, 2017Updated 8 years ago
- ☆16Sep 28, 2022Updated 3 years ago