plotKmerCount {seqTools} | R Documentation |
The function creates plots from counted DNA k-mers from Fastqq objects.
plotKmerCount(object,index,mxey,main="K-mer count",...)
object |
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index |
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mxey |
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main |
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... |
Additional parameters which are passed down to the plot function. |
Values for i must be in {1,...,nFiles}. The function shrinks the k-mer count table down to size of 4096 (k = 6) when k > 6 in order to limit the complexity of the plot.
None.
The static size of the retured k-mer array is 4^k.
Wolfgang Kaisers
Cock PJA, Fields CJ, Goto N, Heuer ML, Rice PM The sanger FASTQ file format for sequences with quality scores and the Solexa/Illumina FASTQ variants. Nucleic Acids Research 2010 Vol.38 No.6 1767-1771
Fastqq-class
basedir <- system.file("extdata",package="seqTools") setwd(basedir) # fq <- fastqq(c("g4_l101_n100.fq.gz", "g5_l101_n100.fq.gz"), k=4, probeLabel=c("g4", "g5")) # plotKmerCount(fq) plotKmerCount(fq,1) plotKmerCount(fq, 1:2) #