hpaXml.Rd
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.
hpaXml( inputXml, extractType = c("ProtClass", "TissueExprSum", "Antibody", "TissueExpr"), ... )
inputXml | Input can be either one Ensembl gene id (start with ENSG) or
a imported XML object resulting from a |
---|---|
extractType | A vector of strings indicate which information is desired
for extraction. By default this function will call all |
... | 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. |
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.
Other xml functions:
hpaXmlAntibody()
,
hpaXmlGet()
,
hpaXmlProtClass()
,
hpaXmlTissueExprSum()
,
hpaXmlTissueExpr()
#> $ProtClass #> # A tibble: 11 x 4 #> source id parent_id name #> <chr> <chr> <chr> <chr> #> 1 NA Ez NA Enzymes #> 2 ENZYME Ec Ez ENZYME proteins #> 3 ENZYME Eh Ec Hydrolases #> 4 HPA Za NA Predicted intracellular proteins #> 5 HPA Zm Za Intracellular proteins predicted by MDM and MDS~ #> 6 UniProt Dr NA Disease related genes #> 7 HPA Pd NA Potential drug targets #> 8 UniProt Ua NA UniProt - Evidence at protein level #> 9 neXtProt Nx NA Mapped to neXtProt #> 10 neXtProt Na Nx neXtProt - Evidence at protein level #> 11 Peptideatlas Ep NA Protein evidence (Peptideatlas) #> #> $TissueExprSum #> $TissueExprSum$summary #> [1] "Cytoplasmic and nuclear expression in several tissues, most abundant in basal cells of squamous epithelia." #> #> $TissueExprSum$img #> # A tibble: 7 x 2 #> tissue imageUrl #> <chr> <chr> #> 1 Liver http://images.proteinatlas.org/28612/64078_A_8_4_rna_selected~ #> 2 Colon http://images.proteinatlas.org/28612/64078_A_7_3_rna_selected~ #> 3 Kidney http://images.proteinatlas.org/28612/64078_A_7_5_rna_selected~ #> 4 Testis http://images.proteinatlas.org/28612/64078_A_4_6_rna_selected~ #> 5 Lymph node http://images.proteinatlas.org/28612/64078_A_8_8_rna_selected~ #> 6 Cerebral cortex http://images.proteinatlas.org/28612/64078_B_8_5_rna_selected~ #> 7 Vagina http://images.proteinatlas.org/28612/64078_B_2_2_rna_selected~ #> #> #> $Antibody #> # A tibble: 1 x 4 #> id releaseVersion releaseDate RRID #> <chr> <chr> <chr> <chr> #> 1 HPA028612 6 2010-03-26 AB_10602135 #>