This class contains the same slots as the
SequenceSummary, as well as additional slots for quality
Note that many accessor functions transform data in the slots into data frames. The data in the slots is mostly untransformed and less easy to work with directly, so using the accessor functions is recommended.
In addition to the slots inherited from
a string indicating the type of quality (used to convert ASCII characters to quality integers). Either "phred", "solexa", or "illumina".
a data frame of quality frequencies by position, if the file was a FASTQ file.
a numeric that is the mean quality across all positions, weighted by the number of reads that extended to that position.
Vince Buffalo <[email protected]>
FASTASummary is the
counterpart of this class for FASTA data.
kmerEntropyPlot is a function that plots the Shannon
entropy of k-mers per position.
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