[Gmod-help] Sequence browser and version clarification

[Olen Vance Sluder Jr]

I am an IT consultant working with the Texas Biomedical Research
Institute <http://txbiomed.org/> (formerly, the Southwest Foundation
for Biomedical Research) in San Antonio, Texas. I will be installing a
number of tools for them from the GMOD suite. I come from a primarily
enterprise IT background, so bioinformatics is a new problem domain
for me.

I have been working through the wealth of information on the GMOD
wiki, but seek some clarification concerning the various sequence
browsers. I see that there are two branches to GBrowse, 1.x and 2.x,
and JBrowser is listed as a "successor" to GBrowse. Also, the
researchers I am working with require use of annotation and
comparative tools, so Apollo, GBrowse_syn, etc. are needed.

At present, I am leaning towards the following toolset based on the
case studies given in the overview on the wiki:

OS: CentOS
Web server: Apache
Database: PostgreSQL
Database schema: Chado
Sequence annotator: Apollo
Sequence browser: GBrowser
Synteny browser: GBrowse_syn

My questions:

1) What is the status of GBrowse_syn support with GBrowse 2.x?
2) Is there a roadmap for a transition from GBrowse to JBrowse?

Any guidance would be greatly appreciated.

I am making arrangements to attend the March meeting in North Carolina
and I have applied for a slot in the subsequent "spring training"
session. I look forward to meeting other members of the GMOD
community.

Regards,
Olen