Closed Amir660066 closed 2 months ago
You need to use the original raw data.
You need to use the original raw data.
The raw data from Bruker comes in .d folders, but when I load these folders into MaxQuant, it shows an error stating that the software cannot find a .RAW file in the folder. How can I resolve this issue?
Dear all,
I am writing to explain my problem and would greatly appreciate any small hints that might help alleviate my desperation. I am relatively new to proteomics, and our laboratory has an older mass spectrometer, the Bruker HCT series with an ion trap. The raw data I receive from this system is not recognized by MaxQuant, as I mentioned previously. I contacted Bruker support, but they were unable to resolve my issue. I have tried converting the raw data, but there has been no improvement in data evaluation.
I would be grateful for any insights on whether this issue can be resolved by developing a new method on our mass spectrometer, or if data generated by such an older system is simply not compatible with software like MaxQuant. I have observed that data generated by newer systems, such as the timsTOF, produce TDF files that are recognized by MaxQuant.
Your assistance would be highly appreciated.
Best regards, Amir
Describe the bug I exported my data from Bruker in the mzXML format. However, when I load it into MaxQuant for LFQ analysis, I encounter an error in the status column, and the program shuts down. I would appreciate your assistance with this issue.