diff --git a/tools/10x_bamtofastq/.shed.yml b/tools/10x_bamtofastq/.shed.yml
index 21ccb74729..3dc8873cdf 100644
--- a/tools/10x_bamtofastq/.shed.yml
+++ b/tools/10x_bamtofastq/.shed.yml
@@ -7,4 +7,5 @@ long_description: |
 remote_repository_url: https://github.com/bgruening/galaxytools/tree/master/tools/10x_bamtofastq
 type: unrestricted
 categories:
-- Convert Formats
+  - Convert Formats
+  - Single Cell
diff --git a/tools/music_deconvolution/.shed.yml b/tools/music_deconvolution/.shed.yml
index 669b7657ab..78e9dfa66e 100644
--- a/tools/music_deconvolution/.shed.yml
+++ b/tools/music_deconvolution/.shed.yml
@@ -7,7 +7,8 @@ long_description: |
 remote_repository_url: https://github.com/galaxyproject/tools-iuc/tree/master/tools/music/
 type: unrestricted
 categories:
-- Transcriptomics
+  - Single Cell
+  - Transcriptomics
 auto_tool_repositories:
   name_template: "{{ tool_id }}"
   description_template: "Wrapper for the MuSiC tool suite: {{ tool_name }}"
diff --git a/tools/salmon/.shed.yml b/tools/salmon/.shed.yml
index 092df08a6f..7e887d6d94 100644
--- a/tools/salmon/.shed.yml
+++ b/tools/salmon/.shed.yml
@@ -1,8 +1,9 @@
 
 categories:
-- Sequence Analysis
-- RNA
-- Transcriptomics
+  - Sequence Analysis
+  - RNA
+  - Transcriptomics
+  - Single Cell
 homepage_url: https://github.com/COMBINE-lab/salmon
 description: Salmon is a wicked-fast program to produce a highly-accurate, transcript-level quantification estimates from RNA-seq and single-cell data.
 long_description: |