Re: [Gmod-ajax] A question for JBrowse1

[Scott C. <sc...@sc...>]

Hi Wei,

While I agree with Ian's suggestion that you try JBrowse 2, if there is a
reason you want to stick with JBrowse 1 for the moment, note that there is
at least an option to add a little bit of space between tracks so that the
labels don't overlap the features by adding "trackLabels = no-block" to the
"[GENERAL]" section of the jbrowse.conf file for the entire site.

Scott


On Thu, Mar 24, 2022 at 1:48 PM Ian Holmes <ihh...@gm...> wrote:

> Dear Wei,
>
> Thanks for your interest in JBrowse. I'm glad it's been helpful to you!
>
> JBrowse1, which is now in maintenance mode only, does not allow adjustment
> of the vertical height of tracks.
> Active development of JBrowse is now focused on JBrowse2
> <https://jbrowse.org/jb2/>, whose "Linear Genome Browser" component
> reproduces most of the functionality of JBrowse1, while fixing a lot of the
> limitations. For example, it is easy to adjust the height of tracks in
> JBrowse2. There are also many new features, such as the ability to view
> synteny between genomes.
> Furthermore, JBrowse2 should be straightforward to install on any website
> where you already have JBrowse1 installed.
> We would be very interested in hearing feedback on your experience with
> JBrowse2, as we are actively encouraging new users to try JBrowse2, and
> would like to try and make the experience as easy as possible for you.
>
> I have CC'd the JBrowse mailing list on this reply; you can also often get
> quicker responses by engaging with the software development team directly
> in the various ways described on the contact page
> <https://jbrowse.org/jb2/contact/> on the JBrowse website.
>
> Thanks & best wishes,
> Ian
>
> On Thu, Mar 24, 2022 at 4:00 AM fa...@ca... <fa...@ca...> wrote:
>
>> Dear Prof. Holmes,
>>       We are trying to build a genome website for our sequenced species,
>> and found JBrowse1 an excellent tool to use.   However, we met a problem on
>> setting the distance between each tracks.  Is there a way to set the
>> distance of drawing among any neiboring tracks?
>>      Thanks for your great work.  I am looking forward to hearing from
>> you!
>>
>> Wei Fan
>> Agriculture genomics Institute at Shenzhen, China
>> ------------------------------
>> fa...@ca...
>>
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> Gmo...@li...
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-- 
------------------------------------------------------------------------
Scott Cain, Ph. D.                                                  scott
at scottcain dot net
GMOD Project Manager (http://gmod.org/)
216-392-3087
WormBase Developer (http://wormbase.org/)
Alliance of Genome Resources Group Leader (http://alliancegenome.org/)
VirusSeq Project Manager (https://virusseq-dataportal.ca/)