Description Usage Arguments Details Value Author(s) See Also Examples
This is used to control the read of a meta file containing names of data files, merge, and give usable output for the main program
1 | readInput(inputFilename, formatName="Chiang", sep = "\t")
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inputFilename |
The name of file, containing relevant information of all input files |
formatName |
The format in which the data files are written in. We use the simple 'Chiang' as default format of input. |
sep |
Delimiter of the meta input file, default is tab-delimited |
The meta input file should be organized in a table format with 2 columns, one of which is 'file' and the other is 'type', indicating the data file names and whether the data is from normal or tumor.
normalSeq |
A list containing the combined normal/control reads |
tumorSeq |
A list containing the combined case/tumor reads |
Jeremy J. Shen
1 2 3 4 5 6 7 | # This shows the format of the meta file
data(JSSim_Meta)
print(JSSim_Meta)
# This shows the recommended format, the Chiang data format
data(JSSim_NormalSim1)
print(head(JSSim_NormalSim1))
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