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|@@ -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:|
|@@ -4,6 +4,7 @@ pages:|
|- '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'|