330k sample info from Phil

2014-08-29

azim58 - 330k sample info from Phil

I obtained some 330k sample info from Phil

original email here
https://mail.google.com/mail/u/0/?shva=1#label/Career/13f58b7c8c28311c

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Kurt;

Inside the HealthTell-CIM folder on the S drive there is a folder called
"Experiments". Inside Experiments there are single folders for each of
the wafers we've run. Inside the '46' wafer, there are a number of
slides, each of which have 24 different assay, that should be very useful
for your analysis. 46 was the best of the new wafers. HT4-22 is the
next-best, and contains a number of cancer and infectious disease samples
(each assay has the name of the disease embedded in the filename).

I would look through wafer 46, then take a look at 22 and see which
diseases you find best represented. The gpr files are inside the "5um
grp" folders, along with the jpeg of the alignment. You should take a
look at the jpegs to see if the image is clean - if there was a problem
with the assay, it is extremely obvious on the jpeg.

Let me know if you want me to pick out individual assays for you, I can
do that but I think you'll get a feel for the data once you browse these
folders.

Phil

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Bart talked to me as well
he told me that in those folders DTRA4 is normal and the other DTRA
samples are disease samples
ND = normal donor
BC = breast cancer

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work on this dataset (found in wikipad)

-tried to calculate 330k data 9-2-13
-calculations for 330k data
-test of one 330k gpr for cv and entropy normalized and non-normalized
-time and space required to calculate entropy of one gpr on saguaro

-some work on entropy 330k data as of 9-15-13

--some nice graphs are found here

-obtaining remaining calculations for 330k data 9-16-13

azim58wiki: