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BridgesLab / CushingAcromegalyStudy

The source code for the cushing and acromegaly studies, currently ongoing
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Run PCA Analysis #48

Closed davebridges closed 9 years ago

davebridges commented 9 years ago

Do PCA analysis for non-age adjusted DESeq script.

qtran1 commented 9 years ago

The PCA for the old analysis does not look different from the age adjusted analysis. This may not help in explaining your point about more GSEA groups to the reviewer.

davebridges commented 9 years ago

Does the PCA just look at the raw values, or the age adjusted values? The graphs are perfectly superimposable

On Sun, Oct 12, 2014 at 3:18 PM, Quynh Tran notifications@github.com wrote:

The PCA for the old analysis does not look different from the age adjusted analysis. This may not help in explaining your point about more GSEA groups to the reviewer.

— Reply to this email directly or view it on GitHub https://github.com/BridgesLab/CushingAcromegalyStudy/issues/48#issuecomment-58820808 .

qtran1 commented 9 years ago

Maybe we should do PCA on the genes, not the samples.

On Oct 12, 2014, at 4:02 PM, Dave Bridges wrote:

Does the PCA just look at the raw values, or the age adjusted values? The graphs are perfectly superimposable

On Sun, Oct 12, 2014 at 3:18 PM, Quynh Tran notifications@github.com<mailto:notifications@github.com> wrote:

The PCA for the old analysis does not look different from the age adjusted analysis. This may not help in explaining your point about more GSEA groups to the reviewer.

— Reply to this email directly or view it on GitHub https://github.com/BridgesLab/CushingAcromegalyStudy/issues/48#issuecomment-58820808 .

— Reply to this email directly or view it on GitHubhttps://github.com/BridgesLab/CushingAcromegalyStudy/issues/48#issuecomment-58822368.