Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
☆44Apr 16, 2021Updated 4 years ago
Alternatives and similar repositories for Heterogeneity
Users that are interested in Heterogeneity are comparing it to the libraries listed below
Sorting:
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Jan 15, 2020Updated 6 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆47Apr 16, 2021Updated 4 years ago
- An R package to time somatic mutations☆66Dec 12, 2020Updated 5 years ago
- Methods and analysis for Garcia-Nieto, et al. Somatic mutations☆17Jan 5, 2020Updated 6 years ago
- ☆84Apr 17, 2025Updated 10 months ago
- Integrating LASSO and bootstrapping algorithm to find best prognostic or predictive biomarkers☆21Oct 12, 2022Updated 3 years ago
- A framework to infer mutational signatures in cancer over time☆56Jul 9, 2019Updated 6 years ago
- Calculating Tumor microenvironment score☆29Jan 20, 2023Updated 3 years ago
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 5 years ago
- GLASS consortium☆42Jun 1, 2020Updated 5 years ago
- ☆48Jan 7, 2025Updated last year
- Bayesian mixture models for estimating and clustering cancer cell fractions☆24Dec 20, 2022Updated 3 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆100Apr 20, 2021Updated 4 years ago
- Prostate Cancer Alteration Signature Analysis https://xsliulab.github.io/PC_CNA_signature/☆13May 17, 2021Updated 4 years ago
- Scripts and files used in the generation of the COLO829 somatic SV truthset.☆13Apr 9, 2022Updated 3 years ago
- ASCAT R package☆199Feb 12, 2026Updated 2 weeks ago
- Quantifying copy number signatures from absolute copy number profiles☆27Jul 23, 2025Updated 7 months ago
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆22May 21, 2024Updated last year
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Jul 27, 2023Updated 2 years ago
- Singularity port of HLA typing based on an input exome BAM file and is currently infers infers alleles for the three major MHC class I (…☆14Jan 15, 2017Updated 9 years ago
- SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…☆24Updated this week
- Battenberg R package for subclonal copynumber estimation☆95Feb 20, 2026Updated last week
- An R package for classification of immune subtypes, in cancer, using gene expression data.☆48Feb 10, 2026Updated 2 weeks 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 5 years ago
- Immune evasion before tumor invasion in early squamous lung cell carcinogenesis☆17Jul 19, 2021Updated 4 years ago
- R package containing useful functions for mutational signature analysis☆86Updated this week
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆67Dec 25, 2022Updated 3 years ago
- Accucopy is a computational method that infers Allele-Specific Copy Number alterations from low-coverage low-purity tumor sequencing data…☆17Mar 6, 2024Updated last year
- CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…☆20Jan 17, 2020Updated 6 years ago
- Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.☆115Sep 2, 2024Updated last year
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72May 23, 2024Updated last year
- Scripts from the GBM cellular states paper☆20Feb 24, 2021Updated 5 years ago
- NOTE: This package has been renamed to sparrow and will be submitted to Bioconductor 3.14. Please use that package instead. This is kept …☆21Nov 16, 2020Updated 5 years ago
- ☆76Jul 12, 2023Updated 2 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆32Feb 18, 2026Updated last week
- CellNet, for cancer☆10Jul 14, 2022Updated 3 years ago
- Code and files accompanying article "The landscape of somatic mutation in normal colorectal epithelial cells"☆11Mar 21, 2021Updated 4 years ago
- ☆11May 12, 2021Updated 4 years ago
- ☆14Mar 28, 2025Updated 11 months ago