FOXA_rGADEM: Dataset for FOXA1
In alyst/MotIV: Motif Identification and Validation
Description
Usage
References
Examples
Description
This dataset contains results obtained by rGADEM for the FOXA1 transcription factor.
Usage
1
References
http://genomebiology.com/2008/9/9/R137
Examples
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#####Database and Scores#####
path <- system.file(package="MotIV")
data(jaspar2010)
data(jaspar2010_scores)
#####Input#####
data(FOXA1_rGADEM)
motifs <- getPWM(gadem)
motifs.trimed <- lapply(motifs,trimPWMedge, threshold=1)
#####Analysis#####
foxa1.analysis.jaspar <- motifMatch(inputPWM=motifs,align="SWU",cc="PCC",database=jaspar,DBscores=jaspar.scores,top=5)
summary(foxa1.analysis.jaspar )
alyst/MotIV documentation built on May 12, 2019, 2:33 a.m.
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Description Usage References Examples
Description
This dataset contains results obtained by rGADEM for the FOXA1 transcription factor.
Usage
1 |
References
http://genomebiology.com/2008/9/9/R137
Examples
1 2 3 4 5 6 7 8 9 10 11 12 13 | #####Database and Scores#####
path <- system.file(package="MotIV")
data(jaspar2010)
data(jaspar2010_scores)
#####Input#####
data(FOXA1_rGADEM)
motifs <- getPWM(gadem)
motifs.trimed <- lapply(motifs,trimPWMedge, threshold=1)
#####Analysis#####
foxa1.analysis.jaspar <- motifMatch(inputPWM=motifs,align="SWU",cc="PCC",database=jaspar,DBscores=jaspar.scores,top=5)
summary(foxa1.analysis.jaspar )
|
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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