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Avinash Ramu
Avinash Ramu committed Mar 24, 2017
1 parent ab2b191 commit e279536d0b10a62742415b0e52e6a9f3ccc00852
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  1. +1 −0 docs/commands/cis-ase-identify.md
  2. +1 −0 docs/commands/commands.md
  3. +1 −0 mkdocs.yml
@@ -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.
@@ -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:
- [identify](cis-ase-identify.md)
##junctions
View
@@ -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'

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