marsdenl
marsdenl
Hey @quentinblampey, thanks for getting back to me. Here is the info: [config.txt](https://github.com/user-attachments/files/17007688/config.txt) [limited_file.csv](https://github.com/user-attachments/files/17007737/limited_file.csv) The transcripts.csv above is the one that contains both the missing columns error and the float64...
In case this helps, @quentinblampey, I also tried Comseg and get a similar issue with poor formatting on some patches but not all patches (some rows have fewer or more...
I repeated patchify on the same sample with the same config file then simply counted the number of rows that did not have 9 columns in the patch files (I...
Hey, thanks for trying to reproduce the issue :) Just tried with the --technology uniform dataset but for baysor patchify it only creates one patch so I don't know if...
Of course, yes sorry xD Made 8 patches on the tutorial dataset and ran baysor (made the changes needed in the config file for v7.0) and it worked perfectly fine....
Here is what I have done: ## Check initial detected_trascripts.csv ## import pandas as pd data = pd.read_csv('Z:Queries/Data/Batch5_region0/region_0/detected_transcripts.csv', header=None, low_memory=False) incomplete_rows = data[data.apply(lambda x: len(x.dropna()) != 11, axis=1)] # =>...
Sure thing! 1) On the original file: data.isna().any(axis=1).mean() 0.00000010972423337598314 data.isna().any(axis=1).value_counts() False 9113756 True 1 Name: count, dtype: int64 The only true count being the column names. 2) On the dask-written...
Sorry, I wasn't super clear. The only count with data.isna().any(axis=1).value_counts() is the first row, which corresponds to the column names. The first row of the first column is empty: Just...
Hey @quentinblampey, you're absolutely right. Tried sopa patchify baysor in Mac OS and ran baysor on each patch on my windows machine and it ran perfectly fine. That's good to...
Sure thing :) Best of luck with the windows issue. I am a big fan of proseg - it looks really good. I definitely think you should add it to...