Changes

* [[GotCloud: Alignment Pipeline|Alignment Pipeline]]  

* [[GotCloud: Alignment Pipeline|Alignment Pipeline]]  

** [[Creating an AMI on EC2]]

** [[Alignment Sub-Pipelines]] - for if you do not want to run the entire Alignment Pipeline

* [[GotCloud: Variant Calling Pipeline|Variant Calling Pipeline]]

* [[GotCloud: Variant Calling Pipeline|Variant Calling Pipeline]]

* [[GotCloud: Indel Calling Pipeline|Indel Calling Pipeline]]

* [[GotCloud: Indel Calling Pipeline|Indel Calling Pipeline]]