Evan Staton
Evan Staton
If I set up my ~/.github config file as: ``` user somename password somepass token sometoken ``` I get the error: ``` Err: Login with GitHub token is deprecated. ```...
Currently, the output consists of TSV files with mappings of genes or transcripts to GO terms. It would be helpful to take a GFF3 file as input and add GO...
We should run similary- and model-based searches. Currently, only model-bases searches are used. The `run` command is easy to extend, this issue is a reminder to add this option.
Include BLAST2GO, Trinotate...others? Add suggestions here. Importantly, I need to select a common set of analyses to perform to be fair.
The CLI arguments should override the configuration, and the behavior should be known and documented.
Use example from Arabidopsis or Drosophila because they go quite fast.
The singleton repeat fraction is derived from annotations but this is not clear from the summary file. This could be presented better, and maybe provide a link to the wiki...
...also show memory usage as a function of genome coverage.
I have updated the title (removed the comment about warnings) because the syntax that was generating warnings will no longer compile.