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griffithlab · Mar 24, 2017 · e279536 · e279536
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diff --git a/docs/commands/cis-ase-identify.md b/docs/commands/cis-ase-identify.md
@@ -27,4 +27,5 @@ The `cis-ase identify` command is used to identify allele-specific expression ev
 
 ###Output
 The output is in the VCF format and contains a list of polymorphic sites that show evidence for allele specific expression.
+
 TODO - add details about the model parameters here.
diff --git a/docs/commands/commands.md b/docs/commands/commands.md
@@ -18,6 +18,7 @@ Below are links to detailed explanations of the `cis-splice-effects` sub-command
 This set of tools helps identify and work with allele-specific-expression near variants, these could be somatic variants or germline polymorphisms/mutations. These variants are hypothesized to act in cis and affect how the gene is transcribed.
 
 Below are links to detailed explanations of the `cis-ase` sub-commands:
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 - [identify](cis-ase-identify.md)
 
 ##junctions

diff --git a/mkdocs.yml b/mkdocs.yml
@@ -4,6 +4,7 @@ pages:
 - Commands:
     - 'Index of commands': 'commands/commands.md'
     - 'cis-splice-effects identify': 'commands/cis-splice-effects-identify.md'
+    - 'cis-ase identify': 'commands/cis-ase-identify.md'
     - 'junctions extract': 'commands/junctions-extract.md'
     - 'junctions annotate': 'commands/junctions-annotate.md'
     - 'variants annotate': 'commands/variants-annotate.md'