Caravagna Lab (caravagnalab)

Caravagna Lab

caravagnalab

Geek Repo

The Cancer Data Science Laboratory at the University of Trieste, Italy. PI Giulio Caravagna.

Location:Trieste

Home Page:www.caravagnalab.org

Twitter:@gcaravagna

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Caravagna Lab's repositories

revolver

REVOLVER - Repeated Evolution in Cancer

mobster

Model-based subclonal deconvolution from bulk sequencing.

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CNAqc

CNAqc - Copy Number Alteration (CNA) Quality Check package

Language:RLicense:GPL-3.0Stargazers:18Issues:4Issues:30

congas

A set of Pyro models and functions to infer CNA from scRNA-seq data

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rcongas

rcongas

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TINC

Tumour-in-Normal Contamination assessment with evolutionary theory.

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devil

devil

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easypar

Easy parallelisation of R computations.

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nextflow_modules

Nextflow modules from the lab

rRACES

R wrapper for the RACES package

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VIBER

VIBER - Variational Binomial Mixtures

bascule

Detecting mutational signatures via bayesian inference and a reference catalog

Language:RLicense:GPL-3.0Stargazers:1Issues:5Issues:3

caravagnalab.github.io

Landing repository for GitHub Pages

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INCOMMON

Inference of copy number and mutation multiplicity in oncology

Language:RLicense:NOASSERTIONStargazers:1Issues:3Issues:3

lineaGT

Lineage inference from Gene Therapy assays with insertional mutagenesis and somatic mutations

Language:RLicense:GPL-3.0Stargazers:1Issues:3Issues:0

pylineaGT

A Pyro model to perform lineage inference from Gene Therapy assays

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simbascule

Package to generate synthetic data from the bascule generative model.

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TAPACLOTH

Targeted panel-oriented test for clonality and heterozygosity

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tumourevo

Analysis pipleine to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and mutational signature deconvolution)

License:GPL-3.0Stargazers:1Issues:0Issues:0

INCOMMON_shiny

Shiny Apps for INCOMMON

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pybascule

Mutational signatures deconvolution via Bayesian NMF

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tickTack

Timing Inference for Copy number alterations: Tracking Alterations in Cancer Karyotypes

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biPOD

Bayesian inference for population dynamics

Language:RLicense:GPL-3.0Stargazers:0Issues:3Issues:1

evoverse_reproducibility

A repository to store and share code developed for the evoverse paper

License:MITStargazers:0Issues:2Issues:0

keap1_classifier

A classifier for clonal KEAP1 mutations.

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pydevil

A Python Framework for Single Cell Differential Expression ANalysis

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rdevil

A R Framework for Single Cell Differential Expression Analysis

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