Update CHANGELOG

Author: drpatelh

CHANGELOG.md

@@ -3,7 +3,12 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## [Unpublished Version / DEV]
+## [[3.7](https://github.com/nf-core/rnaseq/releases/tag/3.7)] - 2022-04-29
+
+### :warning: Major enhancements
+
+- Updated default STAR version to latest available (`2.7.10a`; see [#808](https://github.com/nf-core/rnaseq/issues/808]))
+- Vanilla Linux Docker container changed from `biocontainers/biocontainers:v1.2.0_cv1` to `ubuntu:20.04` (see [#764](https://github.com/nf-core/rnaseq/issues/764]))
 
 ### Enhancements & fixes
 
@@ -15,7 +20,19 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - [[#808](https://github.com/nf-core/rnaseq/issues/808)] - Auto-detect usage of Illumina iGenomes reference
 - Updated pipeline template to [nf-core/tools 2.3.2](https://github.com/nf-core/tools/releases/tag/2.3.2)
 
-### Parameters
+### Software dependencies
+
+Note, since the pipeline is now using Nextflow DSL2, each process will be run with its own [Biocontainer](https://biocontainers.pro/#/registry). This means that on occasion it is entirely possible for the pipeline to be using different versions of the same tool. However, the overall software dependency changes compared to the last release have been listed below for reference.
+
+| Dependency    | Old version | New version |
+| ------------- | ----------- | ----------- |
+| `samtools`    | 1.14        | 1.15.1      |
+| `star`        | 2.6.1d      | 2.7.10a     |
+| `stringtie`   | 2.1.7       | 2.2.1       |
+
+> **NB:** Dependency has been **updated** if both old and new version information is present.
+> **NB:** Dependency has been **added** if just the new version information is present.
+> **NB:** Dependency has been **removed** if version information isn't present.
 
 ## [[3.6](https://github.com/nf-core/rnaseq/releases/tag/3.6)] - 2022-03-04
 

tower.yml

@@ -0,0 +1,33 @@
+reports:
+  multiqc_report.html:
+    display: "MultiQC HTML report"
+  "**/star_salmon/**/deseq2.plots.pdf":
+    display: "All samples STAR Salmon DESeq2 QC PDF plots"
+  "**/star_salmon/salmon.merged.gene_counts.tsv":
+    display: "All samples STAR Salmon merged gene raw counts"
+  "**/star_salmon/salmon.merged.gene_tpm.tsv":
+    display: "All samples STAR Salmon merged gene TPM counts"
+  "**/star_salmon/salmon.merged.transcript_counts.tsv":
+    display: "All samples STAR Salmon merged transcript raw counts"
+  "**/star_salmon/salmon.merged.transcript_tpm.tsv":
+    display: "All samples STAR Salmon merged transcript TPM counts"
+  "**/salmon/**/deseq2.plots.pdf":
+    display: "All samples Salmon DESeq2 QC PDF plots"
+  "**/salmon/salmon.merged.gene_counts.tsv":
+    display: "All samples Salmon merged gene raw counts"
+  "**/salmon/salmon.merged.gene_tpm.tsv":
+    display: "All samples Salmon merged gene TPM counts"
+  "**/salmon/salmon.merged.transcript_counts.tsv":
+    display: "All samples Salmon merged transcript raw counts"
+  "**/salmon/salmon.merged.transcript_tpm.tsv":
+    display: "All samples Salmon merged transcript TPM counts"
+  "**/star_rsem/**/deseq2.plots.pdf":
+    display: "All samples STAR RSEM DESeq2 QC PDF plots"
+  "**/star_rsem/rsem.merged.gene_counts.tsv":
+    display: "All samples STAR RSEM merged gene raw counts"
+  "**/star_rsem/rsem.merged.gene_tpm.tsv":
+    display: "All samples STAR RSEM merged gene TPM counts"
+  "**/star_rsem/rsem.merged.transcript_counts.tsv":
+    display: "All samples STAR RSEM merged transcript raw counts"
+  "**/star_rsem/rsem.merged.transcript_tpm.tsv":
+    display: "All samples STAR RSEM merged transcript TPM counts"