Skip to contents

Export the subset data

Source: R/download.R
hpaExport.Rd

Export the list object generated by hpaSubset() into xlsx format. Due to the size of some HPA datasets, as well as the limitation of the output format, exporting the full datasets generated by hpaDownload() is not recommended. This is a convenient wrapper for `write.` functions.

Usage

hpaExport(data, fileName, fileType = "xlsx")

Arguments

data

Input the list object generated by hpaSubset()

fileName

A string indicate the desired output file name. Do not include file extension such as '.xlsx'.

fileType

The format as which the data will be exported. Choose one of these options: 'xlsx', 'csv' and 'tsv'.

Value

  • 'xlsx': return one .xlsx file named 'fileName.xlsx'. One individual sheet for each dataset in the input list object.

  • 'csv': return .csv files, one for each dataset in the input list object, named 'fileName_datasetName.csv'

  • 'tsv': return .tsv files, one for each dataset in the input list object, named 'fileName_datasetName.tsv'

See also

Other downloadable datasets functions: hpaDownload(), hpaSubset()

Examples

  downloadedData <- hpaDownload(downloadList='histology', version='example')
#> Only the followings are example/built-in datasets: 
#>  - Normal tissue 
#>  - Pathology 
#>  - Subcellular location 
#> Other datasets will not be loaded
  geneList <- c('TP53', 'EGFR')
  tissueList <- c('breast', 'cerebellum', 'skin 1')
  cancerList <- c('breast cancer', 'glioma', 'melanoma')

  subsetData <- hpaSubset(data=downloadedData,
                           targetGene=geneList,
                           targetTissue=tissueList,
                           targetCancer=cancerList)
  hpaExport(data=subsetData,
            fileName='TP53_EGFR_in_tissue_cancer.xlsx',
            fileType='xlsx')