Description Usage Arguments Author(s) Examples
View source: R/combine.table.R
Merges overlapped windows to identify genomic boundaries of kataegic events. This function also assigns hypermuation and kataegic score for combined windows
1 | combine.table(test.table, somatic, mutdistance, segnum, output.name)
|
test.table |
Data frame of kataegis test scores |
somatic |
Data frame of somatic variants |
mutdistance |
The maximum intermutational distance allowed for SNVs to be grouped in the same kataegic event. Recommended value: 3.2 |
segnum |
Minimum mutation count. The minimum number of mutations required within a cluster to be identified as kataegic. Recommended value: 4 |
output.name |
Name of the generated output directory. |
Fouad Yousif
Fan Fan
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 | load(
paste0(
path.package("SeqKat"),
"/extdata/test/somatic.rda"
)
);
load(
paste0(
path.package("SeqKat"),
"/extdata/test/final.score.rda"
)
);
combine.table(
final.score,
somatic,
3.2,
4,
tempdir()
);
|
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