A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
☆35Jan 28, 2022Updated 4 years ago
Alternatives and similar repositories for MesKit
Users that are interested in MesKit are comparing it to the libraries listed below
Sorting:
- ☆10Jan 21, 2023Updated 3 years ago
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14May 28, 2019Updated 6 years ago
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 5 years ago
- Easily Process a Batch of Cox Models☆23Jul 26, 2025Updated 7 months ago
- R package to do enrichment analysis for neoantigens☆13Feb 21, 2022Updated 4 years ago
- A framework to infer mutational signatures in cancer over time☆56Jul 9, 2019Updated 6 years ago
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆25Jan 28, 2026Updated last month
- Contribution of systemic and somatic factors to clinical response and resistance in urothelial cancer: an exploratory multi-omic analysis☆24Oct 31, 2017Updated 8 years ago
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆15May 8, 2015Updated 10 years ago
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆67Dec 25, 2022Updated 3 years ago
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Jan 15, 2020Updated 6 years ago
- ☆18Jan 30, 2023Updated 3 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆75Sep 12, 2024Updated last year
- A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)☆30Aug 30, 2019Updated 6 years ago
- An R package to time somatic mutations☆66Dec 12, 2020Updated 5 years ago
- DISCOVER co-occurrence and mutual exclusivity analysis for cancer genomics data☆32May 1, 2025Updated 10 months ago
- Adapted from the GATK best practice guide to preprocess whole exome sequencing (WES) data☆11Sep 4, 2019Updated 6 years ago
- Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and …☆14Feb 26, 2026Updated last week
- Curated list of TCGA resources☆59Nov 10, 2017Updated 8 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
- Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R☆12Dec 6, 2021Updated 4 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆100Apr 20, 2021Updated 4 years ago
- CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots☆96Aug 1, 2024Updated last year
- Evolutionary frequency visualization tool of temporal data☆24Jan 25, 2022Updated 4 years ago
- Workflow for Sequenza, cellularity and ploidy☆26Aug 19, 2025Updated 6 months ago
- cDriver R package for finding candidate driver genes in cancers☆18Jan 18, 2018Updated 8 years ago
- This repository contained single-cell RNA-seq datasets with ICB treated patients☆14Nov 8, 2024Updated last year
- 上科大刘雪松课题组基因组学分 析传承与分享知识库☆14Feb 21, 2020Updated 6 years ago
- Automate Absolute Copy Number Calling using 'ABSOLUTE' package☆41Nov 28, 2023Updated 2 years ago
- hands-on for NGS/SNParray CNV call trainning☆20Jun 13, 2022Updated 3 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 5 years ago
- GCAP (Gene-level Circular Amplicon Prediction) firstly implements extrachromosomal DNA detection from whole-exome-sequencing (WES) data a…☆21Aug 22, 2025Updated 6 months ago
- DriverPower☆26Jan 18, 2025Updated last year
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 4 years ago
- A method for circular DNA detection based on probabilistic mapping of ultrashort reads☆65Jul 17, 2024Updated last year
- Fork of the Polysolver project☆33Nov 21, 2019Updated 6 years ago
- Python function for TMB snake plots☆16Feb 12, 2026Updated 3 weeks ago
- Code accompanying The Evolutionary history of 2,658 cancers☆47Apr 16, 2021Updated 4 years ago
- Codes and Data for FFPEsig manuscript☆17Jan 17, 2024Updated 2 years ago