Analyse Gene Expression Data And Other Measured Data In Cummerbund

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10.6 years ago

sindrelee ▴ 10

Hi! I have two types of data, mRNAseq and other measured data i.e. fat%/glucose tolerance etc.

My questions are: 1. How can I import "other measured data" in cummeRbund? 2. How can a calculate correlations between mRNAseq results and "other measured data"? I.e. diff. gene exp. of one gene with glucose tolerance.

Thanks you so much!

cummerbund expression association correlation r rnaseq • 1.7k views

ADD COMMENT • link 10.6 years ago by sindrelee ▴ 10

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Are you sure that you want to use cummeRbund for this? In general, cummeRbund (and the whole cufflinks pipeline) isn't really well suited for more complex experiments. If you have a large number of clinical findings and aren't sure what sort of generalized linear model might describe the data, you might have a look at WGCNA.

BTW, for importing data, type: help(read.table)

ADD REPLY • link 10.6 years ago by Devon Ryan 104k

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