gerstung-lab/PCAWG-11

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gerstung-lab/PCAWG-11

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Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)

MutationTimeR

An R package to time somatic mutations

SARS-CoV-2-International

International SARS-CoV-2 surveillance

Jupyter Notebook

AML-multistage

Code accompanying Precision oncology for acute myeloid leukemia using a knowledge bank approach

BaSISS

Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper

Jupyter Notebook

deepSNV

The official repository for the deepSNV bioconductor packages. Branch master tracks the official Bioconductor development branch.

MDS-expression

R code for Combining gene mutation with gene expression data improves outcome prediction in myelodysplastic syndromes

Delphi

Jupyter Notebook

sarscov2-b117

Spatiotemporal analysis of strain-specific B.1.1.7 SARS-CoV-2 infection dynamics

Jupyter Notebook

preAML

Code accompanying Prediction of AML risk in healthy individuals by Abelson, Collord, et al. (2018), Nature, 559:400-404

BarrettsProgressionRisk

An R package to process and predict risk of adenocarcinoma progression from shallow whole-genome sequencing data.

CHOCOLAT-G2P

Jupyter Notebook

ebmstate

An R package for Empirical Bayes MultiState models

ebmstate_paper_data_files

ebsurv

SARS-CoV-2-Germany

SARS-CoV-2 genomic surveillance in Germany

Jupyter Notebook

MPN-multistage

MPN multistage calculator