MEDME.writeFiles {MEDME} | R Documentation |
allows to write sgr or gff files after MEDME analysis
MEDME.writeFiles(data, output, path = getwd(), format, featureLength = NULL)
data |
An object of class MEDMEset |
output |
string; the name of the data slot to be written on the disk, either logR, smoothed, AMS or RMS |
path |
string; the path where the files are stored; the current working directory is the default |
format |
string; either sgr or gff to indicate the respective file formats |
featureLength |
integer; in case of GFF file format the length of the features has to be provided to determine start and end positions |
One GFF or SGR file is provided for each sample of the data MEDMEset object.
In case of GFF files, tab-delimited files with header are provided with following fields for each probe: chromosome, empty field, probe ids, start and stop chromosomal positions, and score and empty fields.
In case of sgr files, tab-delimited files with no header and chr, chr positions and score are provided.