Description Usage Arguments Details Value Author(s)
Convert gap characters in an alignemnt
1 2 | convertGaps(file, output, formatin = "sequential", formatout = formatin,
colsep = "", from = "?", to = "-", overwrite = FALSE, ...)
|
file |
path and file name of a DNA alignment |
output |
path and file name for the modified file |
formatin |
format of the input file (to be passed to
|
formatout |
format for the output file (to be passed to
|
colsep |
argument to be passed to
|
from |
character to be changed in alignment (default “?”) |
to |
new character to use in alignment (default “-”) |
overwrite |
if no output file is specified, and
|
... |
additional arguments to be passed to
|
This function is intended to replace one type of gap character (e.g., ‘?’) into another (e.g., ‘-’).
the name of the output file (invisibly).
Francois Michonneau
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