Description Usage Arguments Value Author(s) Examples
Import a psl formatted alignment file of queries to targets
1 | import.psl(x, score = TRUE, target2chromosome = FALSE)
|
x |
the filename of a psl alignment, with or without a pslHeader. |
score |
logical: if |
target2chromosome |
If psl contains alignments to a chromosome, then you can convert the FastA header chromosome name to the human readable form of “chr11” for example. |
a data.frame
representation of a psl file
Mark Cowley, 12 April 2006
1 2 3 4 5 6 | f <- file.path(system.file(package="blat"), "examples", "test.psl")
psl <- import.psl(f, score=FALSE)
head(psl)
psl <- import.psl(f, score=TRUE)
head(psl)
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