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MonashProteomics / FragPipe-Analyst

GNU General Public License v3.0
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Could not run DDA data on Fragpipe-Analyst #88

Closed YeelonYeoh closed 6 months ago

YeelonYeoh commented 6 months ago

image

YeelonYeoh commented 6 months ago

With reference to the problem in the snapshot above, please offer comments to solve the problem.

hsiaoyi0504 commented 6 months ago

@YeelonYeoh Can you send me your data or at least share the annotation file with me? yihsiao@umich.edu. It's hard to comment based on the info provided.

YeelonYeoh commented 6 months ago

Hi, Hsiaoyi. Here is the screenshot for the annotation file. Unfortunately, I could not upload the file as it is not supported by Github. Please get back to me if you need help. image

YeelonYeoh commented 6 months ago

I am analysing phosphoproteome data acquired by DDA.

hsiaoyi0504 commented 6 months ago

From the screenshot I can see that your conditions are not correct. Looks like you only have four conditions.

YeelonYeoh commented 6 months ago

Thank you for your comments. What should I do to make things work?

YeelonYeoh commented 6 months ago

I only have four conditions to compare

hsiaoyi0504 commented 6 months ago

Just put it into like these four will be fine: Parentialcells_24hrsFOLFX, Parentalcells_untreated, Resistancecells_24hrsFOLFX, andResistancecells_untreated.