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oai:data.mendeley.com/cv66sgfcfn.2 2026-04-20T22:48:30Z

Lai, Jiaying PICTographPlus: Data Sets and Resources Mendeley Data All the code are freely available at https://github.com/KarchinLab/pictographPlus and https://github.com/KarchinLab/PICTographPlus_manuscript. Benchmarking dataset ------------------------------------------------------------------------------- all benchmarking scripts and data information can be found in benchmarking folder. A README.md is provided with detailed instructions. Case analysis dataset ------------------------------------------------------------------------------- Inputs: CRUK0004_input: input data for TRACERx patient. CRUK0004_SNV.csv: input somatic mutation file CRUK0004_facets.csv: input somatic copy number file CRUK0004_RNA.csv: input RNA read counts MK74_input: input data for Semaan et al. IPMN patient. MK74_snv.csv: input somatic mutation file MK74_cn.csv: input somatic copy number file MK74_rna.csv: input RNA read counts PCSI0380_input: input data for PanCuRx PDAC patient. PCSI0380_snv.csv: input somatic mutation/copy number file PCSI0380_.csv: input RNA read counts Outputs: CRUK0004_output: output data for TRACERx patient. MK74_output: output data for Semaan et al. IPMN patient. PCSI0380_output: output data for PanCuRx PDAC patient. Each of the above output folder contains the following files: tree.csv: PICTographPlus tree subclone_proportion.csv: subclone proportion for each sample clusterAssign.csv: assignment of mutation to each cluster purity.csv: estimated purity per sample mcf.csv: cluster mutation cellular fraction clonal_expression.csv: clone-level gene expression GSEA: gene set enrichment analysis results Lung Cancer Pancreatic Cancer Computational Genomics RNA Sequencing Phylogeny Genome Sequencing Yang, Yi Noller, Kathleen Liu, Yunzhou Balan, Archana Nagendra, Prathima Kagohara, Luciane Fertig, Elana Wood, Laura Karchin, Rachel Dataset doi:10.17632/cv66sgfcfn.2 oai:data.mendeley.com/cv66sgfcfn.2 Creative Commons Attribution 4.0 International http://creativecommons.org/licenses/by/4.0 https://data.mendeley.com/datasets/cv66sgfcfn 2026-04-20T22:48:30Z