Hello,
I have a BED file that needs some basic linear interpolation.
For example, this is how only a few lines might originally look like
chr2 23 24 property1 0.0 property2 10
chr2 1000 1001 property1 0.5 property2 40
chr2 3000 3001 property1 1.5 property2 42
chr2 3500 3501 property1 2.4 property2 56
chr2 4500 4501 property1 2.6 property2 60
...
My question: Is there any BioC package that will interpolate properties every,
say every 2000 base positions?
So, for that particular example, I'll need the interpolations at chromosome
positions 2000, 4000, etc. So, the output should look like this
chr2 2000 2001 property1 1.0 property2 41
chr2 4000 4001 property1 2.5 property2 58
chr2 6000 blah blah...
...
I know that it can be solved with R's standard approxfun() but it is such a
common task that it might already exist in BioC.
Thank you,
Ivan
> sessionInfo()
R version 2.9.0 Under development (unstable) (2009-03-10 r48103)
x86_64-unknown-linux-gnu
locale:
LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] IRanges_1.1.48
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