[ome-users] the last item on your list please

[Curtis Rueden]

Hi Norihiko,

> I would not think we were ever able to connect OMERO to RStudio.

What you can do is use Bio7 [1] which integrates ImageJ + R, then add the
OMERO plugins on top [2]. While the integration is indirect, it should be
possible use Bio7's features to send image data from OMERO through ImageJ
to R, and vice versa. I have not personally tried it, though.

Regards,
Curtis

[1] http://bio7.org/
[2] http://help.openmicroscopy.org/imagej.html


On Tue, Nov 26, 2013 at 9:40 AM, Petr Walczysko <p.walczysko at dundee.ac.uk>wrote:

> Hi Norihiko
>
> Thanks for this.
> Unfortunately, we did not have any R bindings and we do not have them -
> that is why we do not have any documentation on this.
> So I would not think we were ever able to connect OMERO to RStudio.
> Sorry about this.
>
> All the best
> Petr
>
>
>
> On 26 Nov 2013, at 14:24, Norihiko Kobayashi <N.Kobayashi at dundee.ac.uk>
>  wrote:
>
> > Hi Petr,
> >
> > Thanks for your lecture for me, and your information is so useful for me.
> > Last item is about R.
> > Half years ago, your group had another lecture, and I heard you could
> connect OMERO to RStudio like Fiji,
> > and treat OMERO data using R.
> > I did not realise how to do in that time, and I can not find out a
> document which describe about it in your webpage.
> > I appreciate if you could let me know where I should check to learn it.
> >
> > Kind regards,
> > Nori
> >
> >
> >
> >
> > On 26 Nov 2013, at 13:30, Petr Walczysko <p.walczysko at dundee.ac.uk>
> wrote:
> >
> >> Hi Nori
> >>
> >> I am sorry, we forgot to deal with the last item of your list during
> the OMERO workshop.
> >> What was the item please ? Something with R…. - would you please remind
> me ?
> >> I will try to find out an answer for you as soon as possible.
> >> Thanks for your feedback today.
> >> Cheers
> >> Petr
> >>
> >>
> >> On 26 Nov 2013, at 12:15, Petr Walczysko <p.walczysko at dundee.ac.uk>
> wrote:
> >>
> >>> http://fiji.sc/Fiji
> >>> On 26 Nov 2013, at 11:30, Petr Walczysko <p.walczysko at dundee.ac.uk>
> >>> wrote:
> >>>
> >>>> Link to install Matlab
> >>>>
> >>>>
> https://my.dundee.ac.uk/webapps/portal/frameset.jsp?tab_group=community&url=%2Fwebapps%2Fblackboard%2Fcontent%2FcontentWrapper.jsp%3Fcontent_id%3D_3698245_1%26displayName%3DLinked%2BFile%26course_id%3D_28436_1%26navItem%3Dcontent%26attachment%3Dtrue%26href%3Dhttp%253A%252F%252Fmatlab-flex.lifesci.dundee.ac.uk%252F
> >>>>
> >>>>
> >>>>
> >>>>
> >>>> On 26 Nov 2013, at 11:24, Petr Walczysko <p.walczysko at dundee.ac.uk>
> wrote:
> >>>>
> >>>>> Hi Nori
> >>>>> this is Petr form OME
> >>>>> Here is the link to lthe documentation.
> >>>>> for u-tack
> >>>>> https://www.openmicroscopy.org/site/products/partner
> >>>>> Cheers
> >>>>> Petr
> >>>>
> >>>
> >>
> >
>
>
> The University of Dundee is a registered Scottish Charity, No: SC015096
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