setUpReactomeMapping: Set up space of mappings in package.
In cmujzbit/OmicsON: OmicsON is a package implementing workflow for finding associations acrossomics data sets
Description
Usage
Arguments
Examples
Description
Function is used to set up initial space of mappings in package.
It is necessary to set up this space before any analysis. It is crutial for the process
of mapping ChEBI, Ensemble and UniProt ids to Reactome pthways ids.
Usage
1
2
setUpReactomeMapping(ChEBI2ReactomeFileURL, Ensembl2ReactomeFileURL,
UniProt2ReactomeFileURL)
Arguments
ChEBI2ReactomeFileURL
A string which represents
full URL to mapping file on Reactome page. This file include ChEBI ids
mapped to Reactome pathway ids.
Ensembl2ReactomeFileURL
A string which represents
full URL to mapping file on Reactome page. This file include Ensemble ids
mapped to Reactome pathway ids.
UniProt2ReactomeFileURL
A string which represents
full URL to mapping file on Reactome page. This file include UniProt ids
mapped to Reactome pathway ids.
Examples
1
2
3
4
OmicsON::setUpReactomeMapping(
ChEBI2ReactomeFileURL = "https://reactome.org/download/current/ChEBI2Reactome.txt",
Ensembl2ReactomeFileURL = "https://reactome.org/download/current/Ensembl2Reactome.txt",
UniProt2ReactomeFileURL = "https://reactome.org/download/current/UniProt2Reactome.txt")
cmujzbit/OmicsON documentation built on May 12, 2020, 8:06 p.m.
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Description Usage Arguments Examples
Description
Function is used to set up initial space of mappings in package. It is necessary to set up this space before any analysis. It is crutial for the process of mapping ChEBI, Ensemble and UniProt ids to Reactome pthways ids.
Usage
1 2 | setUpReactomeMapping(ChEBI2ReactomeFileURL, Ensembl2ReactomeFileURL,
UniProt2ReactomeFileURL)
|
Arguments
ChEBI2ReactomeFileURL |
A string which represents full URL to mapping file on Reactome page. This file include ChEBI ids mapped to Reactome pathway ids. |
Ensembl2ReactomeFileURL |
A string which represents full URL to mapping file on Reactome page. This file include Ensemble ids mapped to Reactome pathway ids. |
UniProt2ReactomeFileURL |
A string which represents full URL to mapping file on Reactome page. This file include UniProt ids mapped to Reactome pathway ids. |
Examples
1 2 3 4 | OmicsON::setUpReactomeMapping(
ChEBI2ReactomeFileURL = "https://reactome.org/download/current/ChEBI2Reactome.txt",
Ensembl2ReactomeFileURL = "https://reactome.org/download/current/Ensembl2Reactome.txt",
UniProt2ReactomeFileURL = "https://reactome.org/download/current/UniProt2Reactome.txt")
|
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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