nearestProts: Compute distances between a particular protein or profile and...
In mooredf22/protlocassign0p1p1: Compute constrained proportional assignments for fractionated protein abundance
Description
Usage
Arguments
Value
Examples
View source: R/protDistanceCompute.R
Description
Compute distances between a particular protein or profile and all other proteins,
and list the nearest ones
Usage
1
nearestProts(protName, n.nearest = 5, distProts, protNames, profile)
Arguments
protName
Name of protein to which distances are to be computed
n.nearest
Number of nearest proteins to list
distProts
distance matrix created by, for example
protNames
A list of all proteins in a dataset
profile
dataframe of profiles for proteins
Value
List of the proteins in protName closest to protName or to the profile
Examples
1
2
3
4
5
data(protNSA_AT5tmtMS2)
distUse <- dist(protNSA_AT5tmtMS2[,seq_len(9)], method="euclidean")
protsUse <- names(protNSA_AT5tmtMS2)
nearestProts(protName="CTSD", n.nearest=10, distProts=distUse,
protNames=protsUse, profile=protNSA_AT5tmtMS2[,seq_len(9)])
mooredf22/protlocassign0p1p1 documentation built on Feb. 7, 2022, 1:55 a.m.
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Description Usage Arguments Value Examples
View source: R/protDistanceCompute.R
Description
Compute distances between a particular protein or profile and all other proteins, and list the nearest ones
Usage
1 | nearestProts(protName, n.nearest = 5, distProts, protNames, profile)
|
Arguments
protName |
Name of protein to which distances are to be computed |
n.nearest |
Number of nearest proteins to list |
distProts |
distance matrix created by, for example |
protNames |
A list of all proteins in a dataset |
profile |
dataframe of profiles for proteins |
Value
List of the proteins in protName closest to protName or to the profile
Examples
1 2 3 4 5 | data(protNSA_AT5tmtMS2)
distUse <- dist(protNSA_AT5tmtMS2[,seq_len(9)], method="euclidean")
protsUse <- names(protNSA_AT5tmtMS2)
nearestProts(protName="CTSD", n.nearest=10, distProts=distUse,
protNames=protsUse, profile=protNSA_AT5tmtMS2[,seq_len(9)])
|
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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