adds how to cite

README.md

@@ -34,6 +34,12 @@ In summary, QuaC performs the following:
 
 Full documentation, including installation and how to run QuaC, is available at <https://quac.readthedocs.io>.
 
+## Citing QuaC
+
+If you use QuaC, please cite:
+
+Gajapathy et al., (2023). QuaC: A Pipeline Implementing Quality Control Best Practices for Genome Sequencing and Exome Sequencing Data. Journal of Open Source Software, 8(90), 5313, https://doi.org/10.21105/joss.05313
+
 ## Repo owner
 
 - **Mana**valan Gajapathy

docs/faq.md

@@ -15,3 +15,8 @@ from it's last state.
 * If `--cli_cluster_config` was used, logs from the snakemake process are stored in the directory provided using `--log_dir`. Else, logs will be directed to stderr/stdout and not stored in a file.
 * If `--snakemake_cluster_config` was used, logs for the jobs triggered by snakemake workflow are stored in sub-directory `rule_logs/` under the directory provided using `--log_dir`. Else, logs will be directed to stderr/stdout.
 
+## How to cite QuaC?
+
+Please cite this article:
+
+Gajapathy et al., (2023). QuaC: A Pipeline Implementing Quality Control Best Practices for Genome Sequencing and Exome Sequencing Data. Journal of Open Source Software, 8(90), 5313, https://doi.org/10.21105/joss.05313

docs/index.md

@@ -75,3 +75,8 @@ Optionally QuaC can also utilize QC results produced by the tools listed below w
 
      * At CGDS, these optional tools were run by our small_variant_caller_pipeline.
 
+## Citing QuaC
+
+If you use QuaC, please cite:
+
+Gajapathy et al., (2023). QuaC: A Pipeline Implementing Quality Control Best Practices for Genome Sequencing and Exome Sequencing Data. Journal of Open Source Software, 8(90), 5313, https://doi.org/10.21105/joss.05313