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I've used read.table to read a file that contains numbers such as 0.00001

when I write them back with write.table those numbers appear as 1e-5

How can I keep the old format?

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I would just change the scipen option before calling write.table. Note that this will also change how numbers are displayed when printing to the console.

options(scipen=10)
write.table(foo, "foo.txt")
options(scipen=0)  # restore the default

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