uniprot_2_mgi: Uniprot 2 MGI
In NathanSkene/Uniprot2mgi:
Description
Usage
Format
Source
Description
A dataset obtained from Uniprot mapping each Swissprot/Trembl ID onto the equivilent MGI ID
Usage
1
Format
An object of class data.frame with 77102 rows and 9 columns.
Source
The code to prepare the .Rda file file from the marker file is:
library("biomaRt")
mouse = useMart(host="www.ensembl.org", "ENSEMBL_MART_ENSEMBL", dataset = "mmusculus_gene_ensembl")
attrib_mus = listAttributes(mouse)
mgi_symbols = getBM(attributes=c("mgi_id"), mart=mouse)
mgi_syms = getBM(attributes=c("mgi_id","mgi_symbol"), mart=mouse)
write.csv(mgi_syms,file="data/mgi_ids_to_syms.csv")
write.csv(mgi_symbols[,1],"mgi_ids.csv")
uniprot_2_mgi = fread("/Users/natske/Desktop/Mouse Synaptosome Project/data/uniprot-AllMGIids.tab",stringsAsFactors = FALSE)
uniprot_2_mgi = data.frame(uniprot_2_mgi)
colnames(uniprot_2_mgi)[1] = "MGIid"
devtools::use_data(uniprot_2_mgi,overwrite=TRUE)
NathanSkene/Uniprot2mgi documentation built on May 25, 2019, 12:25 p.m.
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Description Usage Format Source
Description
A dataset obtained from Uniprot mapping each Swissprot/Trembl ID onto the equivilent MGI ID
Usage
1 |
Format
An object of class data.frame with 77102 rows and 9 columns.
Source
The code to prepare the .Rda file file from the marker file is:
library("biomaRt")
mouse = useMart(host="www.ensembl.org", "ENSEMBL_MART_ENSEMBL", dataset = "mmusculus_gene_ensembl")
attrib_mus = listAttributes(mouse)
mgi_symbols = getBM(attributes=c("mgi_id"), mart=mouse)
mgi_syms = getBM(attributes=c("mgi_id","mgi_symbol"), mart=mouse)
write.csv(mgi_syms,file="data/mgi_ids_to_syms.csv")
write.csv(mgi_symbols[,1],"mgi_ids.csv")
uniprot_2_mgi = fread("/Users/natske/Desktop/Mouse Synaptosome Project/data/uniprot-AllMGIids.tab",stringsAsFactors = FALSE)
uniprot_2_mgi = data.frame(uniprot_2_mgi)
colnames(uniprot_2_mgi)[1] = "MGIid"
devtools::use_data(uniprot_2_mgi,overwrite=TRUE)
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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