Missing script to split BAM in long read mode

mcgilldinglab / MATES

A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data

MIT License

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Missing script to split BAM in long read mode #4

Closed mcortes-lopez closed 3 months ago

mcortes-lopez commented 6 months ago

Hi, I think the following script is missing: split_bam_by_bc_long.py it is required when running bam_processor.split_bam_files(). So far I modified the split_bc_long.sh script by changing split_bam_by_bc_long.py for split_bam_by_bc.py and it seems to work. I wanted to confirm that this is fine or get the corresponding script.

Best, Mariela

Szym29 commented 6 months ago

Hi Mariela,

Thank you very much for your feedback. @RoKsaNne, can you check scripts again and make sure everything is uploaded?

Regards, Yumin

RoKsaNne commented 6 months ago

Hi Mariela,

Thanks for pointing that out, your attempt is right!

The split_bc_long.sh seems to be an old version so the split_bam_by_bc_long.py didn't change to split_bam_by_bc.py, sorry for the inconvenience, I've updated the split_bc_long.sh now.

Best, Ruohan