Oliver Schwengers

Full Fasta info object without index building

1

Hi and thanks a lot for this super-fast python library. We'd like to use this in our tools like Bakta and Platon. Maybe I've overlooked something, but we need a...

New Tool for Per-Sequence Depths

1

Hi @sstadick and thanks a lot for developing perbase! I'd love to use perbase to estimate the final coverages of multisteps short/long/hybrid bacterial whole-genome assemblies. For these use cases, a...

Production stable or WIP

1

Hi Martin, thanks a lot for this wonderful Python bindings project (and all others). We're keen to use this to replace HMMER in [Bakta](https://github.com/oschwengers/bakta/pull/219) and we're quite happy with the...

PyPI sdist package and conda-forge recipe

7

Hi @tweedge , thanks for this wonderful Python library! I'd like to use it in one of our Python bioinformatics applications (oschwengers/bakta). As the main distribution channel of this software...

Add an option to resume a former failed analysis. Skip the reanalysis of all `finished` per isolate steps and only re-run `failed` steps. Option: `--resume`

As requested in #274, we could reduce the default locus_tag offset from `5` to `1`. A differing offset could be provided via a new parameter `--locus-tag-increment `.