Apply a function to items in list and combine into data frame
list2df is a helper function that takes a named list and
applies a function to each element, and combines the resulting data
frames into a single data frame. The output data frame will have an
additional column named
sample indicating which element the
data came from.
a named list of objects.
a function that takes in the elements of
A data frame made by applying
fun to each element of the list
x. An additional column named
sample will indicate which
element the data came from.
Vince Buffalo <firstname.lastname@example.org>
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## Get some sequence files sq.files = list.files(system.file('extdata', package='qrqc'), pattern="test.*fastq", full.names=TRUE) names(sq.files) <- gsub("(.*)\\.fastq", "\1", basename(sq.files)) sq <- lapply(sq.files, readSeqFile) ## Take the FASTQSummary objects, extract quality data from each of ## the, and combine. d <- list2df(sq, getQual) ## Look at difference in average quality aggregate(d$mean, list(sample=d$sample), mean) ## Look at difference in variance - this is where we really see a ## change. aggregate(d$mean, list(sample=d$sample), var)
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