add citations

CITATIONS.md

@@ -14,6 +14,9 @@
 
   > Andrews, S. (2010). FastQC: A Quality Control Tool for High Throughput Sequence Data [Online].
 
+- [STARSolo](https://github.com/alexdobin/STAR/blob/master/docs/STARsolo.md)
+  > Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, Batut P, Chaisson M, Gingeras TR. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013 Jan 1;29(1):15-21. doi: 10.1093/bioinformatics/bts635. Epub 2012 Oct 25. PMID: 23104886; PMCID: PMC3530905.
+
 - [MultiQC](https://pubmed.ncbi.nlm.nih.gov/27312411/)
 
   > Ewels P, Magnusson M, Lundin S, Käller M. MultiQC: summarize analysis results for multiple tools and samples in a single report. Bioinformatics. 2016 Oct 1;32(19):3047-8. doi: 10.1093/bioinformatics/btw354. Epub 2016 Jun 16. PubMed PMID: 27312411; PubMed Central PMCID: PMC5039924.

subworkflows/local/utils_nfcore_accurascoperna_pipeline/main.nf

@@ -169,8 +169,8 @@ def toolCitationText() {
     def citation_text = [
             "Tools used in the workflow included:",
             "FastQC (Andrews 2010),",
+            "STARSolo (Dobin et al. 2021)",
             "MultiQC (Ewels et al. 2016)",
-            "."
         ].join(' ').trim()
 
     return citation_text
@@ -182,6 +182,7 @@ def toolBibliographyText() {
     // Uncomment function in methodsDescriptionText to render in MultiQC report
     def reference_text = [
             "<li>Andrews S, (2010) FastQC, URL: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/).</li>",
+            "<li>Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, Batut P, Chaisson M, Gingeras TR. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013 Jan 1;29(1):15-21. doi: 10.1093/bioinformatics/bts635. Epub 2012 Oct 25. PMID: 23104886; PMCID: PMC3530905.</li>",
             "<li>Ewels, P., Magnusson, M., Lundin, S., & Käller, M. (2016). MultiQC: summarize analysis results for multiple tools and samples in a single report. Bioinformatics , 32(19), 3047–3048. doi: /10.1093/bioinformatics/btw354</li>"
         ].join(' ').trim()
 
@@ -204,7 +205,7 @@ def methodsDescriptionText(mqc_methods_yaml) {
 
     // TODO nf-core: Only uncomment below if logic in toolCitationText/toolBibliographyText has been filled!
     // meta["tool_citations"] = toolCitationText().replaceAll(", \\.", ".").replaceAll("\\. \\.", ".").replaceAll(", \\.", ".")
-    // meta["tool_bibliography"] = toolBibliographyText()
+    meta["tool_bibliography"] = toolBibliographyText()
 
 
     def methods_text = mqc_methods_yaml.text