map_aliquot_ID_to_SP_ID: Translate aliquot IDs (e.g....
In steverozen/PCAWG7: Repository of Data from paper 'The repertoire of Mutational Signatures in Human Cancer'
Description
Usage
Arguments
Details
Value
Note
Examples
View source: R/map_aliquot_ID_to_SP_ID.R
Description
Translate aliquot IDs (e.g. e0fccaf5-925a-41f9-b87c-cd5ee4aecb59) to "SP" IDs (e.g. SP1682)
Usage
1
map_aliquot_ID_to_SP_ID(aliquot.ids)
Arguments
aliquot.ids
Character vector of aliquot IDs.
Details
If there are aliquot IDs that cannot be matched to any "SP" IDs,
return NA with a warning.
Value
Character vector of corresponding "SP" IDs. If a corresponding
aliquot ID cannot be found, then return return NA with a warning.
Note
This function is mainly designed to translate the file names of PCAWG
consensus callsets for SNV/Indel
(https://dcc.icgc.org/api/v1/download?fn=/PCAWG/consensus_snv_indel/final_consensus_snv_indel_passonly_icgc.public.tgz)
Examples
1
2
aliquot.ids <- c("e0fccaf5-925a-41f9-b87c-cd5ee4aecb59", "foo")
SP.ids <- map_aliquot_ID_to_SP_ID(aliquot.ids)
steverozen/PCAWG7 documentation built on Feb. 2, 2022, 5:40 a.m.
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Description Usage Arguments Details Value Note Examples
View source: R/map_aliquot_ID_to_SP_ID.R
Description
Translate aliquot IDs (e.g. e0fccaf5-925a-41f9-b87c-cd5ee4aecb59) to "SP" IDs (e.g. SP1682)
Usage
1 | map_aliquot_ID_to_SP_ID(aliquot.ids)
|
Arguments
aliquot.ids |
Character vector of aliquot IDs. |
Details
If there are aliquot IDs that cannot be matched to any "SP" IDs, return NA with a warning.
Value
Character vector of corresponding "SP" IDs. If a corresponding aliquot ID cannot be found, then return return NA with a warning.
Note
This function is mainly designed to translate the file names of PCAWG consensus callsets for SNV/Indel (https://dcc.icgc.org/api/v1/download?fn=/PCAWG/consensus_snv_indel/final_consensus_snv_indel_passonly_icgc.public.tgz)
Examples
1 2 | aliquot.ids <- c("e0fccaf5-925a-41f9-b87c-cd5ee4aecb59", "foo")
SP.ids <- map_aliquot_ID_to_SP_ID(aliquot.ids)
|
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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