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- Inference of copy number and mutation multiplicity in oncology
rRACES
Public- Analysis pipleine to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and mutational signature deconvolution)
rRACES-examples
Public- Lineage inference from Gene Therapy assays with insertional mutagenesis and somatic mutations
- Bayesian inference for population dynamics
- Detecting mutational signatures via bayesian inference and a reference catalog
TAPACLOTH
Publicdevil
Publicnextflow_modules
PublicpylineaGT
Publicsimbascule
Publicpybascule
PublicCNAqc
PublicCNAqc - Copy Number Alteration (CNA) Quality Check packageINCOMMON_shiny
PublictickTack
PublicTINC
PublicTumour-in-Normal Contamination assessment with evolutionary theory.rcongas
PublicCONGASp
Publicrdevil
Publicmobster
PublicModel-based subclonal deconvolution from bulk sequencing.congas
Publicpydevil
Publicevoverse_reproducibility
Publicrevolver
PublicREVOLVER - Repeated Evolution in CancerVIBER
PublicVIBER - Variational Binomial Mixtureskeap1_classifier
Publiceasypar
PublicEasy parallelisation of R computations.caravagnalab.github.io
Public