A function used to calculate and return the PFSM (Position Specific Frequency Matrix) for a sample, regardless of sequence filtering.
A sample handle to the dataset on which the PSFM is calculated.
The output can be used by the
seqLogo package to create a sequence logo.
selex.samplePSFM returns a matrix containing the frequences for each base at every position.
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# Display all currently loaded samples selex.sampleSummary() r0 = selex.sample(seqName="R0.libraries", sampleName="R0.barcodeGC", round=0) # Make PSFMs for the two visible FASTQ files: psfm1 = selex.samplePSFM(r0) # Can make sequence logos using the seqLogo package: #library(seqLogo) #seqLogo(makePWM(t(psfm1)))
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