User: Simon Kidd

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Simon Kidd180
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Posts by Simon Kidd

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Comment: C: Two bioinformatics conferences in Sydney in July
... At 12.57pm +1100 19/1/05, James Wettenhall wrote: >Hi, > >I am a Windows/Linux user but have lots of biology clients who >are Mac users. They generally don't have the Developer Tools >installed, so what is the best way for me to help them to >install a package like "affy" which ha ...
written 14.9 years ago by Simon Kidd180
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Answer: A: tkrplot in R2.0 on Mac OS X
... At 12:03pm -0600 22/11/04, Rahul Kakkar wrote: >I am trying to get affylmGUI working in Rv2.0 on a Mac OS 10.3 >machine. The only trouble I am having is with tkrplot. When I try >and install it from source, the package installer, or from the >"install.packages2" command, I get the foll ...
written 15.1 years ago by Simon Kidd180
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Comment: C: (no subject)
... At 11:51am +1000 19/6/04, James Wettenhall wrote: >On Fri, 18 Jun 2004, Simon Kidd wrote: >> >class(a) <- "matrix" >> >data.frame(geneIDs=geneIDs,a) > >> This worked right upto the end where it gave me the following error message: >> >> > data.fra ...
written 15.5 years ago by Simon Kidd180
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Comment: C: (no subject)
... At 12:57pm +1000 18/6/04, James Wettenhall wrote: >On Thu, 17 Jun 2004, Simon Kidd wrote: >> Do the p values that affylmgui uses to calculate the venn diagram > > correspond to those given in the toptable lists? > >class(a) <- "matrix" >data.frame(geneIDs=geneIDs,a) > ...
written 15.5 years ago by Simon Kidd180
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Comment: C: (no subject)
... At 10:29am +1000 17/6/04, James Wettenhall wrote: >Hi Simon, > >No sorry, there is no way at the moment to get a list of genes >from the venn diagram in affylmGUI, but depending on how >"CLI challenged" you are, you could ask on this mailing list >about doing this using the limma f ...
written 15.5 years ago by Simon Kidd180
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three way comparisons with affylmgui
... Hi, We are CLI challenged so we have been using affylmgui for our analysis. Our analysis has been to make three comparisons and then to look at the genes which are in common between the three. Affylmgui allows one to visually see the result of the comparison with a Venn diagram, we would like to ge ...
affylmgui written 15.5 years ago by Simon Kidd180
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Answer: A: (no subject)
... Hi, We are CLI challenged so we have been using affylmgui for our analysis. Our analysis has been to make three comparisons and then to look at the genes which are in common between the three. Affylmgui allows one to visually see the result of the comparison with a Venn diagram, we would like to ge ...
written 15.5 years ago by Simon Kidd180
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Answer: A: Is rma in affylmGUI different to affy rma?
... At 5:22pm -0400 13/5/04, Simon Kidd wrote: >Hi, > >We have exported the rma values of our genes from affylmGUI and >compared them to those from running rma in affy (eset <- rma(Data) >)and they appear to be slightly different. Do the two programs do >the same thing? I think I ...
written 15.6 years ago by Simon Kidd180
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Is rma in affylmGUI different to affy rma?
... Hi, We have exported the rma values of our genes from affylmGUI and compared them to those from running rma in affy (eset <- rma(Data) )and they appear to be slightly different. Do the two programs do the same thing? thanks, Simon ...
affy affylmgui written 15.6 years ago by Simon Kidd180
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limma t-tests and SAM
... Hi I have one other question is there an article somewhere which explains in a manner a non statistician might understand the difference between an analysis by limma and paired t-tests and SAM. We have now done all three and are trying to decide which analysis to give most weight to (our experim ...
limma written 15.6 years ago by Simon Kidd180

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