diff --git a/template_analysis/batch_template.m b/template_analysis/batch_template.m
index 4141276..689e265 100644
--- a/template_analysis/batch_template.m
+++ b/template_analysis/batch_template.m
@@ -19,6 +19,9 @@
 AP=setPemDropThreshold(AP,5');
 % Add autofluorescence back in after removing for compensation?
 AP=setUseAutoFluorescence(AP,false');
+% By default, analysis tries to fit constitutive to transformedť and non-transformedť components
+% If your distribution is more complex or less complex, you can change the number of components
+% AP=setNumGaussianComponents(AP,3);
 
 % Make a map of condition names to file sets
 stem1011 = '../example_assay/LacI-CAGop_';
diff --git a/template_analysis/plots/placeholder.txt b/template_analysis/plots/placeholder.txt
deleted file mode 100644
index 152f67e..0000000
--- a/template_analysis/plots/placeholder.txt
+++ /dev/null
@@ -1 +0,0 @@
-A placeholder to make sure the plots directory is here when checked out
diff --git a/template_analysis/plusminus_template.m b/template_analysis/plusminus_template.m
index 8d0ce1a..df7aa8b 100755
--- a/template_analysis/plusminus_template.m
+++ b/template_analysis/plusminus_template.m
@@ -23,6 +23,9 @@
 AP=setPemDropThreshold(AP,5');
 % Add autofluorescence back in after removing for compensation?
 AP=setUseAutoFluorescence(AP,false');
+% By default, analysis tries to fit constitutive to “transformed” and “non-transformed” components
+% If your distribution is more complex or less complex, you can change the number of components
+% AP=setNumGaussianComponents(AP,3);
 
 % Make a map of the batches of plus/minus comparisons to test
 % This analysis supports two variables: a +/- variable and a "tuning" variable
diff --git a/template_analysis/transfercurve_template.m b/template_analysis/transfercurve_template.m
index cd32c96..f63be3b 100644
--- a/template_analysis/transfercurve_template.m
+++ b/template_analysis/transfercurve_template.m
@@ -25,6 +25,9 @@
 AP=setPemDropThreshold(AP,5');
 % Add autofluorescence back in after removing for compensation?
 AP=setUseAutoFluorescence(AP,false');
+% By default, analysis tries to fit constitutive to “transformed” and “non-transformed” components
+% If your distribution is more complex or less complex, you can change the number of components
+% AP=setNumGaussianComponents(AP,3);
 
 % Make a map of induction levels to file sets
 stem1011 = '../example_assay/LacI-CAGop_';
diff --git a/template_colormodel/make_color_model.m b/template_colormodel/make_color_model.m
index b497c06..7ba9d2c 100644
--- a/template_colormodel/make_color_model.m
+++ b/template_colormodel/make_color_model.m
@@ -25,7 +25,7 @@
 channels{1} = Channel('FITC-A', 488, 515, 20);
 channels{1} = setPrintName(channels{1}, 'EYFP'); % Name to print on charts
 channels{1} = setLineSpec(channels{1}, 'y'); % Color for lines, when needed
-colorfiles{1} = [stem0312 'EYFP_P3.fcs'];
+colorfiles{1} = [stem0312 'EYFP_P3.fcs']; % If there is only one channel, the color file is optional
 
 channels{2} = Channel('PE-Tx-Red-YG-A', 561, 610, 20);
 channels{2} = setPrintName(channels{2}, 'mKate');
diff --git a/template_colormodel/plots/placeholder.txt b/template_colormodel/plots/placeholder.txt
deleted file mode 100644
index 152f67e..0000000
--- a/template_colormodel/plots/placeholder.txt
+++ /dev/null
@@ -1 +0,0 @@
-A placeholder to make sure the plots directory is here when checked out