| KSEA.Scores {KSEAapp} | R Documentation |
The KSEA App Analysis (KSEA Kinase Scores Only)
Description
Takes a formatted phoshoproteomics data input and returns just the KSEA kinase scores and statistics
Usage
KSEA.Scores(KSData, PX, NetworKIN, NetworKIN.cutoff)
Arguments
KSData |
the Kinase-Substrate dataset uploaded from the file prefaced with "PSP&NetworKIN_" available from github.com/casecpb/KSEA/ |
PX |
the experimental data file formatted as described in the KSEA.Complete() documentation |
NetworKIN |
a binary input of TRUE or FALSE, indicating whether or not to include NetworKIN predictions; NetworKIN = TRUE means inclusion of NetworKIN predictions |
NetworKIN.cutoff |
a numeric value between 1 and infinity setting the minimum NetworKIN score (can be left out if NetworKIN = FALSE) |
Value
creates a new data frame in R with all the KSEA kinase scores, along with each one's statistical assessment
References
Casado et al. (2013) Sci Signal. 6(268):rs6
Hornbeck et al. (2015) Nucleic Acids Res. 43:D512-20
Horn et al. (2014) Nature Methods 11(6):603-4
Examples
scores = KSEA.Scores(KSData, PX, NetworKIN=TRUE, NetworKIN.cutoff=3)
scores = KSEA.Scores(KSData, PX, NetworKIN=FALSE)