Pinned Repositories
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
deepSNV
The official repository for the deepSNV bioconductor packages. Branch master tracks the official Bioconductor development branch.
Delphi
MDS-expression
R code for Combining gene mutation with gene expression data improves outcome prediction in myelodysplastic syndromes
MutationTimeR
An R package to time somatic mutations
PC-CHiP
Pan-cancer computational histopathology reveals mutations, tumor composition and prognosis
PCAWG-11
Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)
SARS-CoV-2-International
International SARS-CoV-2 surveillance
tensorsignatures
A python package for learning mutational signatures and their multidimensional genomic properties
gerstung-lab's Repositories
gerstung-lab/PC-CHiP
Pan-cancer computational histopathology reveals mutations, tumor composition and prognosis
gerstung-lab/MutationTimeR
An R package to time somatic mutations
gerstung-lab/SARS-CoV-2-International
International SARS-CoV-2 surveillance
gerstung-lab/BaSISS
Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper
gerstung-lab/PCAWG-11
Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)
gerstung-lab/deepSNV
The official repository for the deepSNV bioconductor packages. Branch master tracks the official Bioconductor development branch.
gerstung-lab/tensorsignatures
A python package for learning mutational signatures and their multidimensional genomic properties
gerstung-lab/Delphi
gerstung-lab/sarscov2-b117
Spatiotemporal analysis of strain-specific B.1.1.7 SARS-CoV-2 infection dynamics
gerstung-lab/genomicsurveillance
gerstung-lab/CancerRisk
gerstung-lab/CoxHD
An R package containing high-dimensional extensions of the Cox model
gerstung-lab/signature-interactions
Mutational signatures are jointly shaped by DNA damage and repair
gerstung-lab/BarrettsProgressionRisk
An R package to process and predict risk of adenocarcinoma progression from shallow whole-genome sequencing data.
gerstung-lab/postcode
Decoding of image-based spatial transcriptomics
gerstung-lab/CHOCOLAT-G2P
gerstung-lab/ebmstate
An R package for Empirical Bayes MultiState models
gerstung-lab/ebmstate_paper_data_files
gerstung-lab/ebsurv
gerstung-lab/mutationaccumulation
Codes for a publication about mutation accumulation in >60 DNA repair deficient C. elegant lines (Meier et al, under preparation).
gerstung-lab/SARS-CoV-2-Germany
SARS-CoV-2 genomic surveillance in Germany
gerstung-lab/scHierarchy
A toolking for cell type hierarchies: marker selection & consistent classification
gerstung-lab/omero_setup
gerstung-lab/clonal_dynamics
Code repository for the longitudinal and phylodynamic analysis in "The longitudinal dynamics and natural history of clonal haematopoiesis"
gerstung-lab/clonex
Efficient Wright-Fisher simulations for intra-tumour population genetics
gerstung-lab/gerstung-lab.github.io
gerstung-lab/ProbCox
Probabilistic Cox Regression
gerstung-lab/radiation
Codes for the analysis of C. elegant samples of different DNA repair deficient backgrounds exposed to ionising radiation.
gerstung-lab/uk_biobank_survival
gerstung-lab/wbs-prediction
Code repository for a project focused on diagnostic prediction from whole blood slides