Robert A. Petit III
Robert A. Petit III
Hi @rrwick! Your tools are awesome, thank you very much! I just had a quick question. Can I use Minipolish with an unpolished assembly from say Raven (polishing disabled) or...
Hello! Here's a new theme that is based off 'github-dark' to match Github's current Dark Mode. We had a brief discussion (https://github.com/utterance/utterances/issues/462) and I realize the "github-dark" theme will be...
Hello! I was curious to get your thouts on the "github-dark" theme. Currently it doesn't match the official GitHub Dark mode colors. Do you think the "github-dark" them should be...
This PR addresses issue: [Support single-end (SE) reads #43](https://github.com/tseemann/shovill/issues/43) I went with `shovill-se` to avoid disrupting the main `shovill` pipeline, and I used `--se|--single` to follow how SE reads work...
One thing I was still thinking about (probably more of a different issue): Would it be possible to integrate GTDB into the standard workflow and then annotate based on the...
#### Missing metadata on the following - [x] ./pangenome/meta.yml - [x] ./gtdb/meta.yml - [x] ./clonalframeml/meta.yml - [x] ./mashdist/meta.yml - [x] ./merlin/meta.yml #### Misc things - [ ] Add ONT to...
**Related To** - [X] Bactopia **Is this something you would like to see added?** I would like to see Bactopia be runnable on the [Cancer Genomics Cloud (CGC)](https://www.cancergenomicscloud.org/) and [Terra](https://terra.bio/)...
Suggestions provided by @haruosuz - bactopia can accept GFF3 files (.gff) instead of FASTA files (.fna) as input, like PIRATE and Roary, to skip Prokka? - bactopia can do alignment...
In order for a tool to be added to [Bactopia Tools](https://bactopia.github.io//bactopia-tools/#available-bactopia-tools), it must be available on [Bioconda](https://bioconda.github.io/) and [nf-core/modules](https://github.com/nf-core/modules). __But!!__ Don't let that stop you from suggesting a tool! Time...
**Related To** - [ ] Bactopia - [X] Bactopia Tools **Is this something you would like to see added?** [MiGA](http://microbial-genomes.org/) has a lot of useful reports, especially [MyTaxa Scan](https://help.microbial-genomes.org/assessing-quality#mytaxa-scan). This...