Update installation instructions

README.md

@@ -2,34 +2,19 @@
 
 A [QIIME 2](https://qiime2.org) Plugin for detecting viral genomes and assessing their quality.
 
-###  Install development version of `q2-viromics`
-Clone the repository:
-```shell
-git clone https://github.com/bokulich-lab/q2-viromics.git
-cd q2-viromics
-```
-
-Then, run:
-
-```shell
-mamba create -n q2-viromics -c conda-forge -c bioconda -c https://packages.qiime2.org/qiime2/2024.10/metagenome/passed/ -c defaults q2cli q2-types checkv pyhmmer
-```
-
-###  Activate q2-viromics environment
-```shell
-conda activate q2-viromics
-```
+## Installation
+_q2-viromics_ is available as part of the QIIME 2 pathogenome distribution. For installation and usage instructions please consult the official [QIIME 2 documentation](https://docs.qiime2.org). 
 
 
-### Test it out!
-#### Download sample input [datasets](https://polybox.ethz.ch/index.php/s/9jlQ4oyDWvWyvpB)
+## Usage
+Start by downloading sample input [datasets](https://polybox.ethz.ch/index.php/s/9jlQ4oyDWvWyvpB).
 
-Fetch the checkV database.
+Fetch the checkV database:
 ```bash
 qiime viromics checkv-fetch-db --o-database checkV_db.qza --verbose
 ```
 
-Run the CheckV analysis.
+Run the CheckV analysis:
 ```bash
 qiime viromics checkv-analysis --i-sequences genomad_output/viruses.qza --i-database checkV_db.qza --p-num-threads 4 --output-dir checkV_output --verbose
 ```