Adrian Fritz

The NCBI taxonomy is deeply ingrained into CAMISIM. It would be nice to have some support for the GTDB taxonomy as well

Include the latest PBsim version with new error model(s): https://doi.org/10.1093/bioinformatics/btaa835

Include a pre-built database for ete3.

1

And finally, it would be great to include a pre-built database for ete3. Currently, it is generated during the first execution. Thanks again, Florian _Originally posted by @fplaza in https://github.com/CAMI-challenge/CAMISIM/issues/125#issuecomment-990901418_

File of Files for CAMISIM

2

To improve documentation, simplify usage and increase understanding of code, we should create a file of files for all scripts, defaults and tools provided within CAMISIM

To prevent possible mix-ups (which might have happened in #38 ), each CAMISIM run should have unique filenames for all produced files depending on the sample ID provided in the...

The README is deprecated in parts and needs to be updated