diff --git a/docs/src/installing/index.rst b/docs/src/installing/index.rst index cc75746..d2f082c 100644 --- a/docs/src/installing/index.rst +++ b/docs/src/installing/index.rst @@ -104,9 +104,7 @@ GTDB-Tk makes use of the following 3rd party dependencies and assumes they are o * - `FastTree `_ - >= 2.1.9 - Price MN, et al. 2010. `FastTree 2 - Approximately Maximum-Likelihood Trees for Large Alignments `_. *PLoS One*, 5, e9490. - * - `Mash `_ - - >= 2.2 - - Ondov BD, et al. 2016. `Mash: fast genome and metagenome distance estimation using MinHash `_. *Genome Biol* 17, 132. doi: doi: 10.1186/s13059-016-0997-x. + Please cite these tools if you use GTDB-Tk in your work. diff --git a/gtdbtk/external/skani.py b/gtdbtk/external/skani.py index 4a27cbd..ad516f6 100644 --- a/gtdbtk/external/skani.py +++ b/gtdbtk/external/skani.py @@ -159,7 +159,7 @@ def run_all_vs_all(self, ql, rl,reverse_ql,reverse_rl,tmpdir,skani_preset=None,s # lets sketch all genomes first - self.logger.info('Sketching refence genomes') + self.logger.info('Sketching reference genomes') ref_sketch = self.sketch_references(rl,tmpdir,skani_sketch_dir,skani_preset) self.logger.info('Done')