WARNING: The codebook and transcripts.csv file contain differing genes.

[KunHHE]

Hi Can I ask you what is the error below?

C:/username/miniconda3\envs\myenvMerQuaCo\Lib\site-packages\merquaco\data_loss.py:278: UserWarning: WARNING: The codebook and transcripts.csv file contain differing genes.
Genes missing from the codebook will be removed from dropout consideration as theycannot be properly false positive corrected.
warnings.warn(f'WARNING: The codebook and transcripts.csv file contain differing genes.\n'
C:\Users\hekun\miniconda3\envs\myenvMerQuaCo\Lib\site-packages\merquaco\data_loss.py:305: FutureWarning: DataFrame.groupby with axis=1 is deprecated. Do frame.T.groupby(...) without axis instead.
round_df = codebook.groupby((np.arange(bits) // 3) + 1, axis=1).sum()

[polsen99]

this may be due to the formatting of the codebook.csv file, especially if opened/edited in excel: sometimes genes names (e.g., Sept9 or March1) are reformatted to dates (9-Sep, 1-Mar). could you check to make sure something like this isn't happening?

also, the rest of the data loss/FOV dropout pipeline should work normally on all other genes except for these