readNuPoP {NuPoP} | R Documentation |
This function reads in the prediction results generated by predNuPoP
for specified region.
readNuPoP(file,startPos,endPos)
file |
the prediction output file name from |
startPos |
the start position in the DNA sequence for prediction results plotting. |
endPos |
the end position in the DNA sequence for prediction results plotting. |
A dataframe that contains the results from predNuPoP
. The five columns are
position
: position in the input seqeunce; P-start
: probability as the start of a nucleosome; Occu
: nucleosome occupancy, N/L
: nucleosome (1) or linker (0) based on Viterbi prediction; and Affinity
: nucleosome binding affinity score.
predNuPoP(system.file("extdata", "test.seq", package="NuPoP"),species=7,model=4) ## the prediction results are stored in the current working directory ## the user should replace "system.file("extdata","test.seq_Prediction4.txt",package="NuPoP")" ## by the actual path and file name generated from prediction. temp=readNuPoP(system.file("extdata","test.seq_Prediction4.txt",package="NuPoP"),startPos=1,endPos=5000)