diff --git a/CHANGELOG.md b/CHANGELOG.md
index f2b29a63f..d2797457d 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -10,6 +10,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
- [PR #1376](https://github.com/nf-core/rnaseq/pull/1376) - Fix invalid named parameter syntax
- [PR #1386](https://github.com/nf-core/rnaseq/pull/1386) - Bump pipeline version to 3.16.0dev
- [PR #1388](https://github.com/nf-core/rnaseq/pull/1388) - Adding Kraken2/Bracken on unaligned reads as an additional quality control step to detect sample contamination
+- [PR #1389](https://github.com/nf-core/rnaseq/pull/1389) - Update animated subway map
### Parameters
diff --git a/docs/images/nf-core-rnaseq_metro_map_grey.png b/docs/images/nf-core-rnaseq_metro_map_grey.png
index 1cb1cf32f..79b4e2afc 100644
Binary files a/docs/images/nf-core-rnaseq_metro_map_grey.png and b/docs/images/nf-core-rnaseq_metro_map_grey.png differ
diff --git a/docs/images/nf-core-rnaseq_metro_map_grey.svg b/docs/images/nf-core-rnaseq_metro_map_grey.svg
index c36c3e839..2de5cd2e3 100644
--- a/docs/images/nf-core-rnaseq_metro_map_grey.svg
+++ b/docs/images/nf-core-rnaseq_metro_map_grey.svg
@@ -7,7 +7,7 @@
viewBox="0 0 646.4851 269.92565"
version="1.1"
id="svg8"
- inkscape:version="1.3.2 (091e20e, 2023-11-25)"
+ inkscape:version="1.3.2 (1:1.3.2+202311252150+091e20ef0f)"
sodipodi:docname="nf-core-rnaseq_metro_map_grey.svg"
inkscape:export-filename="nf-core-rnaseq_metro_map_grey.png"
inkscape:export-xdpi="89"
@@ -21,7 +21,12 @@
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:cc="http://creativecommons.org/ns#"
xmlns:dc="http://purl.org/dc/elements/1.1/"> GermlineSarek SomaticSarek Sarek Exome GermlineSarek SomaticSarek Sarek Exome GermlineSarek SomaticSarek Sarek Exome GermlineSarek SomaticSarek Sarek Exome1catfastqSTAGE2. Genome alignment & quantification3. Pseudo-alignment & quantification1. Pre-processing4. Post-processingRSeQC(multiple modules)Kraken2/Bracken3SalmonKallistoMultiQCTSV54SAMtools(sort, index, stats)BEDtoolsgenomecovbedGraphToBigWig GermlineSarek SomaticSarek Sarek StringTie ExomePreseq GermlineSarek SomaticSarek Sarek dupRadar ExomeDESeq2(PCA only) GermlineSarek SomaticSarek Sarek MultiQC ExomeQualimaprnaseqHTML GermlineSarek SomaticSarek Sarek picardMarkDuplicatesBIGWIGHTML Exome1catfastqSTAGE2. Genome alignment & quantification3. Pseudo-alignment & quantification1. Pre-processing4. Post-processing35412
+ BAMBAIPseudo-aligner: Salmon, Quantification: SalmonAligner: HISAT2, Quantification: NoneAligner: STAR, Quantification: Salmon (default)Pseudo-aligner: Kallisto, Quantification: KallistoAligner: STAR, Quantification: RSEMMETHODLicense:STAGE2. Genome alignment & quantification3. Pseudo-alignment & quantification5. Final QC1. Pre-processing4. Post-processingGTFFASTAFASTQcatfastqTrimGalore!SortMeRNAFastQCinferstrandedness(fq, Salmon)BBSplitUMI-toolsextractFastQCFastP1 GermlineSarek SomaticSarek 2STARSalmonSarek HISAT2 ExomeRSEM GermlineSarek SomaticSarek Sarek UMI-toolsdedupTSV Exome GermlineSarek SomaticSarek Sarek Exome GermlineSarek SomaticSarek Sarek Exome
+ sodipodi:nodetypes="cc" />
diff --git a/docs/images/nf-core-rnaseq_metro_map_grey_animated.svg b/docs/images/nf-core-rnaseq_metro_map_grey_animated.svg
index 96ea8972a..8886dd962 100644
--- a/docs/images/nf-core-rnaseq_metro_map_grey_animated.svg
+++ b/docs/images/nf-core-rnaseq_metro_map_grey_animated.svg
@@ -21,7 +21,12 @@
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:cc="http://creativecommons.org/ns#"
xmlns:dc="http://purl.org/dc/elements/1.1/">5
+ href="#hisat2_trimgalore" />
+ href="#hisat2_fastp" />
+ href="#hisat2_trimgalore" />
+ href="#hisat2_fastp" />
GermlineSarek SomaticSarek Sarek Exome GermlineSarek SomaticSarek Sarek Exome GermlineSarek SomaticSarek Sarek Exome GermlineSarek SomaticSarek Sarek Exome
+ id="text74"
+ style="font-size:76.4916px;line-height:1;font-family:'DejaVu Sans Mono';-inkscape-font-specification:'DejaVu Sans Mono';white-space:pre;fill:#ffffff;stroke-width:15.1181;stroke-linecap:round;stroke-linejoin:round"
+ transform="matrix(0.09223963,0,0,0.09223963,199.99988,-1.0793955)"
+ aria-label="Kraken2/
Bracken">