[BioC] accessing decideTests Info
Jason Skelton
jps at sanger.ac.uk
Fri Nov 12 17:50:48 CET 2004
Hi all
I have the following data that I'd like to further explore
from decideTests
> summary(DTresults)
Germball Cerc TwoDay SevenDay TwentyOneDay AdultWorm Egg
-1 1035 868 764 561 706 415 826
0 4891 5057 5144 5520 5178 5573 5150
1 602 603 620 447 644 540 552
I'd like to access particular parts of the tests results and was wondering if there was an easy way of doing this ?
There are seven treatments (Germball, cerc etc)
I'd like to create lists of genes from uniquegenelist
that are:
only downregulated in all treatments
only upregulated in all treatments
only up/down in one specific treatment or a couple of treatments
Is this possible ? using grep or likewise ?
If so could someone show me an example please ?
I know that by looking at the results directly
e.g.
Germball Cerc TwoDay SevenDay TwentyOneDay AdultWorm Egg
[1,] 0 0 0 0 0 0 0
[2,] -1 1 0 0 -1 0 0
[3,] 0 1 0 -1 0 0 1
[4,] 0 0 0 0 0 0 0
[5,] 0 0 0 0 0 0 0
6523 more rows ...
You have the gene information or can apply a unique genelist to it
Is this atall possible ?
Many thanks for any help or advice
Jason
--------------------------------
Jason Skelton
Pathogen Microarrays
Wellcome Trust Sanger Institute
Hinxton
Cambridge
CB10 1SA
Tel +44(0)1223 834244 Ext 7123
Fax +44(0)1223 494919
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