Closed chassenr closed 2 years ago
Hello @chassenr,
Thank you very much for your comments. This will be a great way to speed up the final step of writing sequences to fasta files of bins. I will definitely integrate this into the code.
Thank you very much for your suggestion.
Best regards, Vijini
Hello @chassenr,
I have added a fix to speed up the step of writing the final bins. If you have time, please get a pull from the repo and give it a try. Let me know how it goes.
Thank you!
Best regards, Vijini
@Vini2 Thanks a lot for implementing the speed-up. Works perfectly :)
Closing issue after fixing.
Hi @Vini2 ,
thanks for this really great binning tool. It performs very well on my data and it is much faster than other tools (that perform worse). I have a suggestion for the last step in the workflow. I noticed that the awk command to write the fasta files for each bin was taking almost as long as the binning process before... To speed things up, I implemented this step outside of MetaCoAG using bbmap filterbyname and GNU parallel:
Maybe this (or something similar) is also something you may consider for integration?
Thanks!
Cheers, Christiane