diff --git a/examples/Makefile b/examples/Makefile
index 01291ea..1bc4b37 100644
--- a/examples/Makefile
+++ b/examples/Makefile
@@ -5,5 +5,6 @@ all:
 
 clean:
 	snakemake -c 4 --delete-all-output
+	rm -f *.csv *.png
 
 cleanall: clean all
diff --git a/examples/Snakefile b/examples/Snakefile
index aff9997..c9d50a1 100644
--- a/examples/Snakefile
+++ b/examples/Snakefile
@@ -78,9 +78,10 @@ rule plot2_10sketches_cut:
         cmp="10sketches.cmp",
         labels="10sketches.cmp.labels_to.csv",
     output:
-        "plot2.cut.10sketches.cmp.png",
+        png="plot2.cut.10sketches.cmp.png",
+        clusters=expand("10sketches.cmp.{n}.csv", n=range(1,7)),
     shell: """
-        sourmash scripts plot2 {input.cmp} {input.labels} -o {output} \
+        sourmash scripts plot2 {input.cmp} {input.labels} -o {output.png} \
             --cut-point=1.35 --cluster-out --figsize-x=5 --figsize-y=3
     """
 
@@ -100,7 +101,7 @@ rule mds_10sketches:
     input:
         cmp="10sketches.cmp",
         labels="10sketches.cmp.labels_to.csv",
-        categories="10sketches-categories.csv",
+        categories="sketches/10sketches-categories.csv",
     output:
         "mds.10sketches.cmp.png"
     shell: """
@@ -110,7 +111,7 @@ rule mds_10sketches:
 
 rule cmp_64sketches:
     input:
-        "64sketches.sig.zip",
+        "sketches/64sketches.sig.zip",
     output:
         cmp="64sketches.cmp",
         labels="64sketches.cmp.labels.txt",
@@ -144,7 +145,7 @@ rule r10sketches_pairwise:
 rule mds2_10sketches:
     input:
         cmp="10sketches.pairwise.csv",
-        categories="10sketches-categories.csv",
+        categories="sketches/10sketches-categories.csv",
     output:
         "mds2.10sketches.cmp.png"
     shell: """
@@ -154,7 +155,7 @@ rule mds2_10sketches:
 
 rule r64sketches_pairwise:
     input:
-        "64sketches.sig.zip",
+        "sketches/64sketches.sig.zip",
     output:
         cmp="64sketches.pairwise.csv",
     shell: """
@@ -226,7 +227,7 @@ rule plot3_10sketches:
     input:
         cmp="10sketches.cmp",
         labels="10sketches.cmp.labels_to.csv",
-        categories="10sketches-categories.csv",
+        categories="sketches/10sketches-categories.csv",
     output:
         "plot3.10sketches.cmp.png",
     shell: """
@@ -247,7 +248,7 @@ rule r10sketches_manysearch:
 rule clustermap1_10sketches:
     input:
         cmp="10sketches.manysearch.csv",
-        categories="10sketches-categories.csv",
+        categories="sketches/10sketches-categories.csv",
     output:
         "clustermap1.10sketches.png",
     shell: """
diff --git a/examples/10sketches-categories.csv b/examples/sketches/10sketches-categories.csv
similarity index 100%
rename from examples/10sketches-categories.csv
rename to examples/sketches/10sketches-categories.csv
diff --git a/examples/64sketches.sig.zip b/examples/sketches/64sketches.sig.zip
similarity index 100%
rename from examples/64sketches.sig.zip
rename to examples/sketches/64sketches.sig.zip