RqcResultSet-class {Rqc} | R Documentation |
Class RqcResultSet
Frequency distribution of cycle-specific base call
Frequency distribution of cycle-specific quality
File information
Top over-represented sequencing reads
Read frequency table
Frequency distribution of per read mean quality
Frequency distribution of read width
perCycleBasecall(x) ## S4 method for signature 'RqcResultSet' perCycleBasecall(x) ## S4 method for signature 'list' perCycleBasecall(x) perCycleQuality(x) ## S4 method for signature 'RqcResultSet' perCycleQuality(x) ## S4 method for signature 'list' perCycleQuality(x) perFileInformation(x) ## S4 method for signature 'RqcResultSet' perFileInformation(x) ## S4 method for signature 'list' perFileInformation(x) perFileTopReads(x) ## S4 method for signature 'RqcResultSet' perFileTopReads(x) ## S4 method for signature 'list' perFileTopReads(x) perReadFrequency(x) ## S4 method for signature 'RqcResultSet' perReadFrequency(x) ## S4 method for signature 'list' perReadFrequency(x) perReadQuality(x) ## S4 method for signature 'RqcResultSet' perReadQuality(x) ## S4 method for signature 'list' perReadQuality(x) perReadWidth(x) ## S4 method for signature 'RqcResultSet' perReadWidth(x) ## S4 method for signature 'list' perReadWidth(x)
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checkpoint("Rqc", path=system.file(package="Rqc", "extdata"), { folder <- system.file(package="ShortRead", "extdata/E-MTAB-1147") files <- list.files(full.names=TRUE, path=folder) rqcResultSet <- rqcQA(files, pair=c(1,1), workers=1) }, keep="rqcResultSet") head(perCycleBasecall(rqcResultSet)) head(perCycleQuality(rqcResultSet)) head(perReadFrequency(rqcResultSet)) head(perReadQuality(rqcResultSet)) head(perReadWidth(rqcResultSet)) perFileInformation(rqcResultSet) perFileTopReads(rqcResultSet)