raphael-group / calderLinks
CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk DNA sequencing data
☆15Updated 2 years ago
Alternatives and similar repositories for calder
Users that are interested in calder are comparing it to the libraries listed below
Sorting:
- Implementation of FACETS for Terra☆12Updated 3 years ago
- Inferring selection in cancer sequencing data using ABC and population based simulations☆11Updated 5 years ago
- Model-based tumour subclonal deconvolution using population genetics☆33Updated 2 months ago
- A framework to infer mutational signatures in cancer over time☆56Updated 6 years ago
- DriverPower☆26Updated last year
- Bayesian mixture models for estimating and clustering cancer cell fractions☆24Updated 3 years ago
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆24Updated last week
- Dirichlet Process based methods for subclonal reconstruction of tumours☆32Updated 10 months ago
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Updated 6 years ago
- ☆11Updated last year
- Code accompanying The Evolutionary history of 2,658 cancers☆46Updated 4 years ago
- knowledge-based genotyping of cancer hotspots from the tumor BAM files☆21Updated 4 years ago
- Python function for TMB snake plots☆16Updated 5 years ago
- cDriver R package for finding candidate driver genes in cancers☆18Updated 8 years ago
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆18Updated 2 years ago
- ☆12Updated 5 years ago
- Multi-sample cancer phylogeny reconstruction☆36Updated 8 years ago
- A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)☆30Updated 6 years ago
- Testing a neutral evolution model on cancer sequencing data☆10Updated 4 years ago
- Subclonal Hierarchy Inference from Somatic Mutations☆21Updated 11 months ago
- Explore the cancer relevance of your gene list☆52Updated last month
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆31Updated last year
- Differential ATAC-seq toolkit☆28Updated 2 years ago
- RNA-seq data comprehensive data analysis toolbox☆20Updated 3 years ago
- Detecting somatic mutations and predicting tumor-specific neo-antigens☆29Updated 4 years ago
- Codes and Data for FFPEsig manuscript☆17Updated 2 years ago
- Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…☆42Updated last year
- MicrOSAtellite Instability Classifier☆15Updated 8 years ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆29Updated 4 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆35Updated 4 years ago