Greetings
I would like to be able to use the ShortRead package on CIF file data
from the latest version of the Illumina SCS/Pipeline tools. It appears
that the current version of ShortRead (1.2.1?) doesn't handle this
format. I have a snippet of a R script that will read these binary
files and produce the same output as the Illumina cifToTxt tool and
I'm willing to do the work to incorporate it into ShortRead. Are there
already plans to do this? Can anyone point me to document that
describes the basic syntax and data structures behind R objects of
this class? I've looked at the ShortRead source and I'm not sure I
could figure it out just from that.
Hopefully, the CIF format will be around for awhile.
Thanks
Mike
Michael Muratet, Ph.D.
Senior Scientist
HudsonAlpha Institute for Biotechnology
[email protected]
(256) 327-0473 (p)
(256) 327-0966 (f)
Room 4005
601 Genome Way
Huntsville, Alabama 35806
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