Processed data for "CNSistent integration and feature extraction from somatic copy number profiles".

Description Data processed by the CNSistent tool avaiable https://bitbucket.org/schwarzlab/cnsistent This is a result of running the data processing script on the source data available in the repository or at https://zenodo.org/records/14677713. To be used through the CNSistent library, this data should be extracted into CNSistent/out/. Repository Structure For each dataset of TRACERx, TCGA, and PCAWG the repository contains the following: filled copy number segments (*_fill.tsv) using `cns fill` imputed copy number segments (*_imp.tsv) using `cns imp` aggregated copy number segments (*_[segmentation_type].tsv) using `cns aggregate` The aggregation methods are the following: fixed-size segments of 10 Mb, 5 Mb, 3 Mb, 2 Mb, 1 Mb, 500 Kb, and 250 Kb size; Whole chromosome, chromosome arm, and cytoband-level CN segments; Gene-level CN values based on the ENSEMBL and COSMIC gene sets; and Breakpoint clustering using distance thresholdsof 1 Mb, 500 Kb, and 250 Kb. Each file is aggregated based on the segmentation scheme in the corresponding file called `segs_[segmentation_type].bed`