upens: UniProt mappings
In lgatto/ProteomicsBioc2016Workshop: R/Bioconductor tools for mass spectrometry-based proteomics
Description
Latest (June 2016) human UniProt identifier mapping. upens
gives the mapping with Ensembl genes and upenst gives the
mapping with Ensembl transcripts. These data have been generated as
described in the example.
Usage
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Examples
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## Not run:
library("Pbase")
f <- downloadData("ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/reference_proteomes/Eukaryota/UP000005640_9606.fasta.gz")
up <- Proteins(f)
library("UniProt.ws")
upws <- UniProt.ws()
upens <- select(upws, seqnames(up), "ENSEMBL", "UNIPROTKB")
upenst <- select(upws, seqnames(up), "ENSEMBL_TRANSCRIPT", "UNIPROTKB")
## End(Not run)
lgatto/ProteomicsBioc2016Workshop documentation built on May 21, 2019, 5:13 a.m.
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Description
Latest (June 2016) human UniProt identifier mapping. upens
gives the mapping with Ensembl genes and upenst gives the
mapping with Ensembl transcripts. These data have been generated as
described in the example.
Usage
1 2 |
Examples
1 2 3 4 5 6 7 8 9 10 | ## Not run:
library("Pbase")
f <- downloadData("ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/reference_proteomes/Eukaryota/UP000005640_9606.fasta.gz")
up <- Proteins(f)
library("UniProt.ws")
upws <- UniProt.ws()
upens <- select(upws, seqnames(up), "ENSEMBL", "UNIPROTKB")
upenst <- select(upws, seqnames(up), "ENSEMBL_TRANSCRIPT", "UNIPROTKB")
## End(Not run)
|
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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