Error: replacement has 1 row, data has 0 about ms-cleanr

[guikool]

Hi
this error arise when there is no MS/MS data available, since MS-CleanR is for all ion fragmentation method.
Did you acquire the data in DIA or DDA mode?

[tbento2015]

Hi,
yes, my data is in DDA mode.

[guikool]

did you check the sample order (must be exactly the same) as for sample number and groups between pos and neg

[guikool]

otherwise, send me your output files from MSDIAL so I'll check your data ([email protected])

[tbento2015]

Hi, I just sent it to you. Please let me know if you need anything else.

[guikool]

Indeed QC should represent a mixture of all your sample
try to name three Ctrl as QC and keep three other as Ctrl and name them accordingly in the class column.

Also change the name of your sample by adding a letter before the number and remove the « _ » at the end.

If it doesn’t work, I don’t figure out what’s happening with your data.
Best,
G.