hpaXml: Extract details about an individual protein from XML file in...

In anhtr/HPAanalyze: Retrieve and analyze data from the Human Protein Atlas

Extract details about an individual protein from XML file in one function

Description

This function is the umbrella function for the hpaXml function family. It take the input of either one Ensembl gene id or a imported XML object resulting from a hpaXmlGet() function call. By default, it will extract all information available for HPAanalyze user from the XML file by calling every hpaXml function and put all results into a list.

Usage

hpaXml(
  inputXml,
  extractType = c("ProtClass", "TissueExprSum", "Antibody", "TissueExpr"),
  ...
)

Arguments

inputXml	Input can be either one Ensembl gene id (start with ENSG) or a imported XML object resulting from a hpaXmlGet() function call. You can also use HGNC gene symbol and it will be converted to ensembl id.
extractType	A vector of strings indicate which information is desired for extraction. By default this function will call all hpaXml functions available. Other options are 'ProtClass', 'TissueExprSum', 'Antibody', 'TissueExpr'.
...	Additional arguments to be passed downstream to other hpaXml functions being called behind the scene. See help files of other hpaXml functions for more information.

Value

This function returns a list. Each element of the list is information extracted from the XML file specified using other hpaXml functions. See help file for each XML function for more information.

See Also

Other xml functions: hpaXmlAntibody(), hpaXmlGet(), hpaXmlProtClass(), hpaXmlTissueExprSum(), hpaXmlTissueExpr()

Examples

 
  hpaXml(inputXml='ENSG00000131979', extractType=c('ProtClass', 'TissueExprSum', 'Antibody'))

anhtr/HPAanalyze documentation built on June 3, 2023, 2:19 a.m.