Description Usage Arguments Details Value Author(s) Examples
BioCyc Database API - Pathway
1 2 3 | getCycPathway(speID)
getCycGenesfPathway(pathID)
|
speID |
The BioCyc species ID, for example "ECOLI" is for "Escherichia coli K-12 substr. MG1655". |
pathID |
Pathway ID. |
getCycPathway()
: Get whole pathways list.
getCycGenesfPathway()
: Get genes from a given pathway ID.
It may take more than 10 minutes to retrieve the xml file.
getCycPathway()
: A tbl_df
contains 1st column is pathway ID and 2nd column is pathway annotation.
getCycGenesfPathway()
: A list
indicates genes, proteins, and common names.
Yulong Niu yulong.niu@hotmail.com
1 2 3 4 5 | ## Candida albicans SC5314 pathways
calTU <- getCycPathway('CALBI')
## genes of pathway "CALBI:PWY3B3-8"
genes <- getCycGenesfPathway('CALBI:PWY3B3-8')
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