[ensembl-dev] Ensembl annotation pipeline software available?

[David Mathog]

On 06-Apr-2018 14:12, David Mathog wrote:
> Greetings all,
> 
> Is the software used for this
> 
>    
> http://uswest.ensembl.org/info/genome/genebuild/automatic_coding.html
> 
> publicly available?  That is, can it be downloaded and run locally?
> 

Found these:

https://github.com/Ensembl/ensembl-analysis
   Modules to interface with tools used in Ensembl Gene Annotation
   Process and scripts to run pipelines

https://github.com/Ensembl/ensembl
   The Ensembl Core Perl API and SQL schema

https://github.com/Ensembl/ensembl-annotation
   The Ensembl gene annotation pipeline (a work in progress)

and dozens of others.  Have not located any documentation about how to 
install and run the pipeline though.  Anybody know where that might be, 
or who to ask???

I only need the parts to work from data in (genome, proteins, RNA) to 
gff output.  Anything having to do with checking data into or out of 
EMBL databases is not required.

Thanks,

David Mathog
mathog at caltech.edu
Manager, Sequence Analysis Facility, Biology Division, Caltech