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refresh-bio / SPLASH

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Issue on the option run_10X #8

Closed chstellar closed 11 months ago

chstellar commented 11 months ago

Hi, I've been trying to run SPLASH on paired-end data, but none of --run_10X, -run_10X, or run_10X was recognised as a valid argument by SPLASH. I can see the option 'run_10X' in the documentation, but I am not sure how is this option involved in SPLASH by reading the source code. Also, I have read the documentation and source code, but I did not get an idea of how should I specify the input file when running in 10X mode. My command line instruction was ../splash --bin_path .. input.txt which ran without an error and yielded desired results. Could you provide some hints on how should I adjust my input to allow SPLASH to run in 10X mode? Many thanks.

marekkokot commented 11 months ago

Hi, thank you! I think our README is more updated than it should be. We have in fact a version supporting 10X, but it's not yet publicly available - we are still making some improvements and testing before publishing.

chstellar commented 11 months ago

Thanks for your efforts and looking forward to the updated version :)

lcmmichielsen commented 10 months ago

Hi! I'm interested in the 10x version of the package as well. Do you have any idea when it will become available?

roozbehdn commented 10 months ago

Hi @lcmmichielsen, thanks for your interest in running SPLASH on 10x, we are working on 10x pipeline currently and hope to release it within the next few weeks. We will update this repo when it becomes available.