seqCBS (version 1.2.1)

readSeqChiang: Read data formatted as in Chiang (2009)

Description

Read data formatted as in Chiang (2009), which we recommend using.

Usage

readSeqChiang(filename)

Arguments

filename

The file name of the data set

Value

seqF

Read position for each read

seqChr

Chromosome of each mapped read

Details

This format requires minimal memory and contains all relevant information for this program. It is a table with two columns, first being the chromosome of the mapped read, and the second being the position of the read in the chromosome. One line for each observation. In case of paired read, we only use the front read (whichever has a smaller position label) and ask that you use only that for input.

References

Chiang et al., Nature Methods, 2009, Vol.6 No.1

See Also

readSeq, readSeqChiang, readSeqELANDPaired

Examples

# NOT RUN {
# This shows the format of this type of data
data(JSSim_NormalSim1)
print(head(JSSim_NormalSim1))
# }