keyplayers: List of keyplayers for protiens active in a diabetic mouse...

In hawkdidy/prodata: Builds Protien Sequence And Subregion Molecular Weight Database.

Description

List of protiens that are active in a diabetic mouse pancreas. This can be used to test the function of this package.

Usage

data(ketplayers)

Format

A list of proteins

Examples

data(keyplayers)

ids <- getUID(keyplayers, "[Protein Name] AND Mus musculus[Organism]", "protein" )

proteindf <- getGenPept(ids$UIDs)
res <- unip(ids$UIDs)
#here you must run the command lind tool found here: https://github.com/jdrudolph/uniprot
# res() will also a file called uniprot.txt in your working directory, this can be used with the tool
# like this: uniprot retrieve -f gff uniprot.txt output.txt 
ptmdf <- readPTM('output.txt')
ptmdf <- ptm(ptmdf, res)
ptmdf <- ptmClean(ptmdf)
proteindf <- countPTMs(proteindf, ptmdf)
finaldf <- predictedMW(proteindf, ptmdf)

viz(finaldf)

hawkdidy/prodata documentation built on May 17, 2019, 3:06 p.m.