Show Posts - trammells

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Topics - trammells

XCMS Online / Problem uploading files

December 17, 2012, 08:05:36 PM

I am having problems uploading files for analysis. I converted the Waters .raw files to .cdf. I had uploading other files from the same run converted today and analyzed them no problem. However, my attempts to upload other files have failed. The upload window loads, I am able to name the data set as well. The files come up in the directory and appear to load to the window, however, upon loading, the window does not close and the files are 'uploading' continuously according to the stored data tab. I have tried with both chrome and firefox. Firefox will not even allow me to upload files, though the upload window does load. I am running on Toshiba satellite laptop with windows 7 operating system.

XCMS / Heat Map Visualization

October 27, 2012, 04:46:40 PM

Hi,

I have been attempting to visualize the data as a heat map but haven't found much luck in doing so. Ideally, I'd love to display the data showing changes in abundance with color between two conditions compared to a control group. Does anyone know the correct R code to perform this action? I have looked for the code to make a heat map but I really need something more similar to how microarray data is displayed.

Thank you for your input and if you require further information, please do not hesitate to ask,

Sam

XCMS Online / Analytical versus Biological Replicates

March 23, 2012, 01:46:35 PM

Hello,

I have a statistical question. I have three biological replicates and for each biological replicates two injections (2 analytical replicates). When performing an analysis, I see no way to differentiate between the two types of data sets. I have concerns that with an n of 6 compared to 3, some intensities may be made more significant than they are. However, I clearly want to control for machine produced error. Does anyone have any suggestions for dealing with this problem?

Thank you,

Trammells