BiocycPathwayEnzymes: Get all EC numbers involved in a BioCyc pathway.
In brendaDb: The BRENDA Enzyme Database
Description
Usage
Arguments
Value
Examples
Description
Get all EC numbers involved in a BioCyc pathway.
Usage
1
BiocycPathwayEnzymes(org.id = "HUMAN", pathway, sleep = 0)
Arguments
org.id
The identifier for the organism database in BioCyc, e.g. ECOLI,
HUMAN, META, AFER243159
pathway
A case-sensitive pathway object identifier,
e.g. PWY66-400, LYSINE-DEG1-PWY.
sleep
Optional, default is 0. If set to a non-zero value, pause for
the specified seconds after retrieving each reaction. Increase this if the
default fails (probably limited on the BioCyc API side).
Value
If the pathway is found, returns a tibble with columns
- RxnID: reaction IDs found in the pathway.
- EC: EC number of the enzyme catalyzing the reaction.
- ReactionDirection: direction of the reaction.
- LHS: left-hand-side of the reaction.
- RHS: right-hand-side of the reaction.
Different compounds in the reactions are separated by " + " in columns LHS
and RHS. The function returns NULL if the pathway ID is not found.
Examples
1
BiocycPathwayEnzymes("HUMAN", "PWY66-400")
brendaDb documentation built on Nov. 8, 2020, 5:16 p.m.
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Description Usage Arguments Value Examples
Description
Get all EC numbers involved in a BioCyc pathway.
Usage
1 | BiocycPathwayEnzymes(org.id = "HUMAN", pathway, sleep = 0)
|
Arguments
org.id |
The identifier for the organism database in BioCyc, e.g. ECOLI, HUMAN, META, AFER243159 |
pathway |
A case-sensitive pathway object identifier, e.g. PWY66-400, LYSINE-DEG1-PWY. |
sleep |
Optional, default is 0. If set to a non-zero value, pause for the specified seconds after retrieving each reaction. Increase this if the default fails (probably limited on the BioCyc API side). |
Value
If the pathway is found, returns a tibble with columns
- RxnID: reaction IDs found in the pathway.
- EC: EC number of the enzyme catalyzing the reaction.
- ReactionDirection: direction of the reaction.
- LHS: left-hand-side of the reaction.
- RHS: right-hand-side of the reaction.
Different compounds in the reactions are separated by " + " in columns LHS
and RHS. The function returns NULL if the pathway ID is not found.
Examples
1 | BiocycPathwayEnzymes("HUMAN", "PWY66-400")
|
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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