diff --git a/README.md b/README.md
index 6f5e825..d65aaed 100644
--- a/README.md
+++ b/README.md
@@ -157,11 +157,11 @@ flowchart TB
   end
 
   input_r1 & input_r2 & input_star_genome_dir  & input_gtf -->
-    star_align_reads -->
+    star_align_reads[/STAR align/] -->
     output_star_bam_genome & reads_aligned_to_transcriptome & output_star_junctions & output_star_log
 
-  reads_aligned_to_transcriptome & input_gtf & input_transcript_fasta -->
-    salmon_quant_alignment  -->
+  reads_aligned_to_transcriptome[Reads aligned to transcriptome] & input_gtf & input_transcript_fasta -->
+    salmon_quant_alignment[/"salmon quant (alignment)"/]  -->
     output_salmon
 
   reads_aligned_to_transcriptome --> output_star_bam_transcriptome
@@ -171,7 +171,7 @@ flowchart TB
     output_star_junctions[STAR splice junctions]
     output_star_log[STAR log]
     output_star_bam_transcriptome[STAR transcipt BAM]
-    output_salmon[Salmon quantification]
+    output_salmon[Salmon quantification directory]
   end
 
   classDef info stroke-dasharray: 4 4
diff --git a/README.qmd b/README.qmd
index 5304657..1eeecec 100644
--- a/README.qmd
+++ b/README.qmd
@@ -163,11 +163,11 @@ flowchart TB
   end
 
   input_r1 & input_r2 & input_star_genome_dir  & input_gtf -->
-    star_align_reads -->
+    star_align_reads[/STAR align/] -->
     output_star_bam_genome & reads_aligned_to_transcriptome & output_star_junctions & output_star_log
 
-  reads_aligned_to_transcriptome & input_gtf & input_transcript_fasta -->
-    salmon_quant_alignment  -->
+  reads_aligned_to_transcriptome[Reads aligned to transcriptome] & input_gtf & input_transcript_fasta -->
+    salmon_quant_alignment[/"salmon quant (alignment)"/]  -->
     output_salmon
 
   reads_aligned_to_transcriptome --> output_star_bam_transcriptome
@@ -177,7 +177,7 @@ flowchart TB
     output_star_junctions[STAR splice junctions]
     output_star_log[STAR log]
     output_star_bam_transcriptome[STAR transcipt BAM]
-    output_salmon[Salmon quantification]
+    output_salmon[Salmon quantification directory]
   end
 
   classDef info stroke-dasharray: 4 4
diff --git a/target/nextflow/alignment_quantification/.config.vsh.yaml b/target/nextflow/alignment_quantification/.config.vsh.yaml
index 2ef1728..7446fb1 100644
--- a/target/nextflow/alignment_quantification/.config.vsh.yaml
+++ b/target/nextflow/alignment_quantification/.config.vsh.yaml
@@ -223,7 +223,7 @@ build_info:
   output: "target/nextflow/alignment_quantification"
   executable: "target/nextflow/alignment_quantification/main.nf"
   viash_version: "0.9.4"
-  git_commit: "084cd7d55188c5a0bd05b7d7f23fba9af2d66683"
+  git_commit: "4aaa5f7cdaae871f968a24d8ba3d3b5a619e55d0"
   git_remote: "https://github.com/viash-hub/rnaseq"
   dependencies:
   - "target/dependencies/vsh/vsh/biobox/v0.3.1/nextflow/star/star_align_reads"
diff --git a/target/nextflow/alignment_quantification/main.nf b/target/nextflow/alignment_quantification/main.nf
index 140e8ce..1a37752 100644
--- a/target/nextflow/alignment_quantification/main.nf
+++ b/target/nextflow/alignment_quantification/main.nf
@@ -3302,7 +3302,7 @@ meta = [
     "engine" : "native",
     "output" : "target/nextflow/alignment_quantification",
     "viash_version" : "0.9.4",
-    "git_commit" : "084cd7d55188c5a0bd05b7d7f23fba9af2d66683",
+    "git_commit" : "4aaa5f7cdaae871f968a24d8ba3d3b5a619e55d0",
     "git_remote" : "https://github.com/viash-hub/rnaseq"
   },
   "package_config" : {
diff --git a/target/nextflow/prepare_genome/.config.vsh.yaml b/target/nextflow/prepare_genome/.config.vsh.yaml
index 57ccc82..6edb59e 100644
--- a/target/nextflow/prepare_genome/.config.vsh.yaml
+++ b/target/nextflow/prepare_genome/.config.vsh.yaml
@@ -161,7 +161,7 @@ build_info:
   output: "target/nextflow/prepare_genome"
   executable: "target/nextflow/prepare_genome/main.nf"
   viash_version: "0.9.4"
-  git_commit: "084cd7d55188c5a0bd05b7d7f23fba9af2d66683"
+  git_commit: "4aaa5f7cdaae871f968a24d8ba3d3b5a619e55d0"
   git_remote: "https://github.com/viash-hub/rnaseq"
   dependencies:
   - "target/dependencies/vsh/vsh/toolbox/v0.1.1/nextflow/bgzip"
diff --git a/target/nextflow/prepare_genome/main.nf b/target/nextflow/prepare_genome/main.nf
index 5227306..6e09757 100644
--- a/target/nextflow/prepare_genome/main.nf
+++ b/target/nextflow/prepare_genome/main.nf
@@ -3231,7 +3231,7 @@ meta = [
     "engine" : "native",
     "output" : "target/nextflow/prepare_genome",
     "viash_version" : "0.9.4",
-    "git_commit" : "084cd7d55188c5a0bd05b7d7f23fba9af2d66683",
+    "git_commit" : "4aaa5f7cdaae871f968a24d8ba3d3b5a619e55d0",
     "git_remote" : "https://github.com/viash-hub/rnaseq"
   },
   "package_config" : {