Annotate with homer

Question

[mohamadrezakeshtkar]

Hi

In homer

If the RAM is not more than 4 Gb, what problems does the annotate run with and what information does it lose? And what is the difference between its output and normal?

[Arup Ghosh]

If you are using -noann it will skip the Genomic Annotation part completely. Check the How Basic Annotation Works segment to know the details.

http://homer.ucsd.edu/homer/ngs/annotation.html

[mohamadrezakeshtkar]

Do you mean that you only need to work with ram4 Gb and above? Otherwise there is no point in working with homer?

[Arup Ghosh]

Depends upon the annotations you are looking for, if the genomic annotation is crucial then definitely -noann will be pointless. You can also utilize the UseGalaxy platform to do the analysis.