a web-based application for integrative analysis
of copy number alterations
Launch Tool
a web-based application for integrative analysis
of copy number alterations
Launch Tool
CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-friendly interface. The software uses segmented data from either aCGH, SNP-array, whole-exome sequencing or whole-genome sequencing to assess sample profiles and CNA levels, establishing associations with molecular and clinical features.
Re-Seg & Score
Region profile
Classifier model
Re-segmentation, CNA Scores computation and variable association
Sample CNA profiling, CNA levels quantification, statistical tests for variable associations
Genome region profiling
CNA region profiles, CNA region frequencies, correlation profiles and descriptive regions
Machine-learning classification model predictions
Assessment of the classificatory potential from multiple variables (by randomForest)
CNApp has been developed using Shiny R package (version 1.1.0), from R-Studio, and code is freely available at GitHub.
CNApp can also be downloaded and installed as local tool by following instructions specified in the README file, in the GitHub account.
Please, cite our paper - in eLife journal - where we present CNApp tool:
CNApp, a tool for the quantification of copy number alterations and integrative analysis revealing clinical implications Sebastia Franch-Exposito, Laia Bassaganyas, Maria Vila-Casadesus, Eva Hernandez-Illan, Roger Esteban-Fabro, Marcos Diaz-Gay, Juan Jose Lozano, Antoni Castells, Josep M. Llovet, Sergi Castellvi-Bel, Jordi Camps; eLife 2020;9:e50267; doi: 10.7554/eLife.50267
Institutions involved:
Sponsored by:
