r - Speeding up matlab file import -

r - Speeding up matlab file import -

i trying load matlab file r.matlab package. problem keeps loading indefinitely (e.g. table <- readmat("~/desktop/hg18_with_mir_20080407.mat"). have genome file broad institute (hg18_with_mir_20080407.mat).

you can find at:

http://genepattern.broadinstitute.org/ftp/distribution/genepattern/dev_archive/gistic/broad.mit.edu:cancer.software.genepattern.module.analysis/00125/1.1/

i wondering: has tried bundle , have similar issues?

(hopefully helpful, not answer, though there much formatting comment)

i think may need friend matlab access save file more reasonable format or utilize python info processing. "hangs" me (os x 10.9, r 3.1.1). next works in python:

import scipy.io mat = scipy.io.loadmat("hg18_with_mir_20080407.mat")

(you can see , work rg , cyto' crufty numpy arrays, can't converted json withjson.dumpsand evenjsonpickle.encodecoughs lung-full of errors (i.e. won't able userpython` access object original workaround looking for), no serialization file either (and, have believe resultant json have been ugly deal with).

your options to:

get friend convert (as suggested previous) make csv files out of numpy arrays in python use matlab

r matlab