Skip to content

Commit

Permalink
Update viromes.md
Browse files Browse the repository at this point in the history
  • Loading branch information
asierFernandezP authored Oct 11, 2024
1 parent 72c7976 commit ff32579
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion docs/functional-annotation/viromes.md
Original file line number Diff line number Diff line change
Expand Up @@ -28,7 +28,7 @@ All these tools and the necessary databases have been preinstalled and are ready

First, we will run **geNomad** to identify viral sequences in our dataset. We will utilize the ``--enable-score-calibration`` option to compute false discovery rates (FDR). For this practical exercise, no specific FDR thresholds will be applied. Further, we will add the ``--cleanup`` flag to remove intermediate files and the ``--disable-find-proviruses`` option to avoid geNomad performing an initial prunning to remove potential contaminant host regions from proviral sequences (we will do this in the next step with CheckV).

**Note:** The following command takes about 10 minutes. You can also continue with the results in ``/data/precomputed/virome/genomad_results/``.
**Note:** The following command takes about 2 minutes. You can also continue with the results in ``/data/precomputed/virome/genomad_results/``.
```bash
genomad end-to-end \
--enable-score-calibration \
Expand Down

0 comments on commit ff32579

Please sign in to comment.