marcjwilliams1 / neutralitytestrLinks
Testing a neutral evolution model on cancer sequencing data
☆10Updated 4 years ago
Alternatives and similar repositories for neutralitytestr
Users that are interested in neutralitytestr are comparing it to the libraries listed below
Sorting:
- SelectiOn in PRotein ANnotated regiOns. Adapted dN/dS based method to detect selection in specific protein regions☆11Updated last year
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Updated 5 years ago
- ☆16Updated 2 years ago
- Inferring selection in cancer sequencing data using ABC and population based simulations☆11Updated 4 years ago
- cDriver R package for finding candidate driver genes in cancers☆18Updated 7 years ago
- Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood☆10Updated 2 years ago
- Prostate Cancer Alteration Signature Analysis https://xsliulab.github.io/PC_CNA_signature/☆12Updated 4 years ago
- Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile☆20Updated last year
- SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…☆20Updated 5 months ago
- ☆12Updated 5 years ago
- GCAP (Gene-level Circular Amplicon Prediction) firstly implements extrachromosomal DNA detection from whole-exome-sequencing (WES) data a…☆20Updated 7 months ago
- This repository contains code for the evaluation of epithelial-to-mesenchymal transition states in cancer.☆13Updated 2 years ago
- a computational pipeline for the quantification of the Tumor Immune contexture from human RNA-seq data☆18Updated 4 years ago
- ☆23Updated 3 years ago
- Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles☆33Updated 4 months ago
- ☆12Updated 4 years ago
- A framework to infer mutational signatures in cancer over time☆55Updated 6 years ago
- A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)☆29Updated 5 years ago
- Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.☆36Updated last week
- knowledge-based genotyping of cancer hotspots from the tumor BAM files☆21Updated 3 years ago
- ☆18Updated 2 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 4 years ago
- Implementation of FACETS for Terra☆12Updated 2 years ago
- A record of the analysis pipelines used to create the HTAPP data☆33Updated 3 months ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆21Updated last year
- TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020☆32Updated 3 years ago
- Analyzing chromatin accessibility data in R☆18Updated 2 years ago
- R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…☆16Updated 4 years ago
- represent each cell in UMAP plots as a pie chart☆17Updated 3 years ago
- Model-based subclonal deconvolution from bulk sequencing.☆33Updated 7 months ago