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User: Guillaume Robert
Guillaume Robert • 0
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Posts by Guillaume Robert
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... Thank you for your response. It works fine this way ! ...
written 17 days ago by
Guillaume Robert • 0
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... Hi all,
I'm currently analysing a microarray dataset, on which I'm trying to detect the difference of gene expression between responders and non responders to a treatment.
Even after reading the Limma user guide and searching on the forum I'm not really sure which design matrix I should use for th ...
written 17 days ago by
Guillaume Robert • 0
• updated
17 days ago by
Gordon Smyth ♦ 36k
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... It's working fine! Thank you again for your precious help. ...
written 24 days ago by
Guillaume Robert • 0
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... Hi everyone,
I'm currently analyzing a public microarray dataset (https://www.ebi.ac.uk/arrayexpress/experiments/E-TABM-104/)
I've managed to import the GenePix files into limma thank to the commands :
cols = list(R = "GenePix:F635 Mean", G = "GenePix:F532 Mean", Rb = "GenePix:B635 Medi ...
written 24 days ago by
Guillaume Robert • 0
• updated
24 days ago by
Gordon Smyth ♦ 36k
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84
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... Ok thank you for the precision, I will skip probe filtering then. ...
written 27 days ago by
Guillaume Robert • 0
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... Hi all,
All my apologies for this trivial question, but I haven't been able to find a solution anywhere.
I've got a MAlist object encompassing the expression data of 62 arrays.
In the chapter 7 of the limma user guide it is advised to filter for probes that are not expressed, by keeping only prob ...
written 27 days ago by
Guillaume Robert • 0
• updated
27 days ago by
Gordon Smyth ♦ 36k
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Comment:
C: Limma import .gpr file error
... Ok I will keep the flagged lines then. Thanks for the informations. ...
written 28 days ago by
Guillaume Robert • 0
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Comment:
C: Limma import .gpr file error
... Thank you for your response.
Why would you skipped the flag filtering? I've looked into the file and found several probes flagged with either -100, -75 or -50, but I haven't found the meaning of those flags. ...
written 28 days ago by
Guillaume Robert • 0
0
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107
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Comment:
C: Limma import .gpr file error
... Ok thank you very much it's working now. ...
written 28 days ago by
Guillaume Robert • 0
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... Hi all,
Sorry for this maybe naive question, but I never analysed microarray before.
I'm trying to import .gpr files from a public dataset (https://www.ebi.ac.uk/arrayexpress/experiments/E-TABM-104/) in limma thanks to the function read.maimages().
As specified in the documentation I've created a ...
written 4 weeks ago by
Guillaume Robert • 0
• updated
4 weeks ago by
Gordon Smyth ♦ 36k
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