[BioC] edgeR- data for case studies

Johnson, Franklin Theodore franklin.johnson at email.wsu.edu
Wed Aug 1 05:37:46 CEST 2012

Dear Gordan,
Ok Thanks.
I guess I just wanted to make sure I trimmed the data properly when specified.

From: Gordon K Smyth [smyth at wehi.EDU.AU]
Sent: Tuesday, July 31, 2012 6:19 PM
To: Johnson, Franklin Theodore
Cc: Bioconductor mailing list
Subject: edgeR- data for case studies

Dear Franklin,

You don't say what version of edgeR you are using, but the latest
version of the User's Guide


explains explicitly how to get every dataset for yourself.  The source of
the dataset is explained at the start of every case study.

You have to download these datasets for yourself.  We don't ship them with
the edgeR package.

Best wishes

> Date: Sun, 29 Jul 2012 19:15:27 +0000
> From: "Johnson, Franklin Theodore" <franklin.johnson at email.wsu.edu>
> To: "bioconductor at stat.math.ethz.ch" <bioconductor at stat.math.ethz.ch>
> Subject: [BioC] edgeR- data for case studies
> Hello,
> I am trying to repeat the edgeR process for section 3.3, 3.4 and 3.5 of
> the edgeR user guide.
> However, in the edgeR data folder, labeled 'data', there are only four
> .txt files. These .txt files are used to implement edgeR analysis the
> SAGE experiment for sections 3.1 and 3.2 only.
> Is it possible to receive the data files used to develop the case
> studies for sections 3.3, 3.4 and 3.4?
> Regards,
> Franklin

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