PAHD: Prepare data for inclusion into AnnotationHub
In lgatto/ProteomicsAnnotationHubData: Transform public proteomics data resources into Bioconductor Data Structures
Description
Usage
Arguments
Details
Value
Author(s)
Description
Reads ProteomicsAnnotationHubData dcf files and prepares them for
inclusion into AnnotationHub. See
ProteomicsAnnotationDataHub{} for details and an example.
Usage
1
PAHD(x, resourceDir)
Arguments
x
One of mulitple ProteomicsAnnotationHubData dcf files.
resourceDir
A character containing the directory
holding the files (for instance PRIDE). If missing, will be
inferred from the first RDataPath field of x.
Details
Note: Current limitation is that all the files are expected to
reside in a single resource directory.
Value
A list of PAHD objects that can be used to
prepare and submit data to AnnotationHub. See
ProteomicsAnnotationHub() for details.
Author(s)
Laurent Gatto
## example file for the PXD000001 data
f <- list.files(system.file("extdata", package = "ProteomicsAnnotationHubData"),
full.names = TRUE)
PXD000001 <- PAHD(f)
length(PXD000001)
PXD000001[[1]]
lgatto/ProteomicsAnnotationHubData documentation built on Jan. 11, 2022, 3:41 a.m.
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Description Usage Arguments Details Value Author(s)
Description
Reads ProteomicsAnnotationHubData dcf files and prepares them for
inclusion into AnnotationHub. See
ProteomicsAnnotationDataHub{} for details and an example.
Usage
1 | PAHD(x, resourceDir)
|
Arguments
x |
One of mulitple ProteomicsAnnotationHubData dcf files. |
resourceDir |
A |
Details
Note: Current limitation is that all the files are expected to reside in a single resource directory.
Value
A list of PAHD objects that can be used to
prepare and submit data to AnnotationHub. See
ProteomicsAnnotationHub() for details.
Author(s)
Laurent Gatto ## example file for the PXD000001 data f <- list.files(system.file("extdata", package = "ProteomicsAnnotationHubData"), full.names = TRUE) PXD000001 <- PAHD(f) length(PXD000001) PXD000001[[1]]
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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