Package index

Data Objects

Randomly Generated Data

dummy_pset `::`()

A PharmacoSet object containing randomly generated data for demonstration purposes.

NCI Data

NCI_ALMANAC_sample_metadata `::`()

A data.frame containing cell-line metadata manually curated as part of the PharmacoSet creation process for the NCI-ALMANAC.

NCI_ALMANAC_treatment_metadata `::`()

A data.frame containing drug metadata manually curated as part of the PharmacoSet creation process for the NCI-ALMANAC.

NCI_ALMANAC_raw `::`()

A data.table containing a subset of interesting drug combinations from the NCI-ALMANAC

NCI60_molecular_data `::`()

A MultiAssayExperiment containing RNA microarray, mircoRNA and RNA sequencing data from the NCI60, subset to cell-lines in NCI-ALMANAC

NCI_ALMANAC_pset `::`()

The final PharmacoSet object containing the multiple parts of the NCI-ALMANAC dataset.

NCI_ALMANAC_TRE `::`()

A TreatmentResponseExperiment containing RNA microarray, mircoRNA and RNA sequencing data from the NCI60, subset to cell-lines in NCI-ALMANAC

GDSC Molecular Profiles

GDSC_gene_identifiers

A data.frame containing the mapping of gene names used in the Genomics of Drug Sensitivity in Cancer (GDSC) dataset.

GDSC_model_list

A data.frame containing metadata for cell lines used in the Genomics of Drug Sensitivity in Cancer (GDSC) project.

GDSC_drivers

A data.frame containing a subset of cell lines and driver mutations from the Genomics of Drug Sensitivity in Cancer (GDSC) dataset.

GDSC_rnaseq

A data.frame containing a subset of cell lines and RNA-seq data from the Genomics of Drug Sensitivity in Cancer (GDSC) dataset.

GDSC_methylation_model_list

A data.frame containing cell line Sentrix array metadata for the Genomics of Drug Sensitivity in Cancer (GDSC) dataset.

GDSC_methylation

A data.frame containing methylation beta values for cell lines from the Genomics of Drug Sensitivity in Cancer (GDSC) dataset.

GDSC_drug_response

A data.frame containing drug response data for the Genomics of Drug Sensitivity in Cancer (GDSC) dataset.

CCLE Molecular Profiles

CCLE_model_list

A data.frame containing metadata for cell lines used in the Cancer Cell Line Encyclopedia (CCLE) project.

CCLE_chromatin

A data.frame containing global chromatin profiling of histone marks for the Cancer Cell Line Encyclopedia (CCLE) dataset.

CCLE_rrpa

A data.frame containing protein expression data for the Cancer Cell Line Encyclopedia (CCLE) dataset.

CCLE_metabolomics

A data.frame containing metabolite expression data for the Cancer Cell Line Encyclopedia (CCLE) dataset.