marcjwilliams1 / neutralitytestr
Testing a neutral evolution model on cancer sequencing data
☆10Updated 3 years ago
Related projects ⓘ
Alternatives and complementary repositories for neutralitytestr
- Inferring selection in cancer sequencing data using ABC and population based simulations☆11Updated 3 years ago
- cDriver R package for finding candidate driver genes in cancers☆18Updated 6 years ago
- Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood☆10Updated 2 years ago
- SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…☆18Updated last month
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆16Updated 4 years ago
- SelectiOn in PRotein ANnotated regiOns. Adapted dN/dS based method to detect selection in specific protein regions☆11Updated 6 months ago
- MicrOSAtellite Instability Classifier☆15Updated 6 years ago
- knowledge-based genotyping of cancer hotspots from the tumor BAM files☆19Updated 2 years ago
- Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile☆17Updated last year
- Implementation of FACETS for Terra☆12Updated last year
- ☆11Updated 5 years ago
- An R package to plot maps of clone distributions in somatic evolution☆15Updated 10 months ago
- R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…☆16Updated 3 years ago
- CNAqc - Copy Number Alteration (CNA) Quality Check package☆17Updated last week
- Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours☆26Updated 3 years ago
- a computational pipeline for the quantification of the Tumor Immune contexture from human RNA-seq data☆18Updated 3 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆42Updated 3 years ago
- TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020☆30Updated 3 years ago
- This repository contains code for the evaluation of epithelial-to-mesenchymal transition states in cancer.☆10Updated last year
- ☆12Updated 7 years ago
- GLASS consortium☆13Updated 2 years ago
- A record of the analysis pipelines used to create the HTAPP data☆19Updated this week
- ☆10Updated 4 years ago
- ☆23Updated 2 years ago
- Identify Intra-, Inter-donor variations in bulk or single cell longitudinal dataset☆17Updated last year
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆21Updated 4 months ago
- Quantify the Concurrence of DNA Methylation and De-methylation☆8Updated 2 years ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 3 years ago
- ☆22Updated 2 years ago
- A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)☆29Updated 5 years ago