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It looks like you have a points layer selected on the left - the slice widget will only work with image layers, so if you click the hires layer hopefully it works? We should definitely add a helpful messgage in the widget that says to select an Image layer though, so thanks for reporting this!
Could you eplain a bit more why the second image is a bit strange? It looks the same as the first image to me.
would you consider to work on spatial transcriptomic data ?
napari-matplotlib is meant to be a very broad and generic package, so it won't include any research area specific features. If there are any generic features you are insterested in adding suggestions would be super welcome!
working on spatial transcriptomic data would be great. There is a plugin for napari by squipy team
what I woul like to have is extraction og genes expression under 1 spot...
I think this is out of scope for napari-matplotlib, as it is designed to have generic tools that can be used on any data types - thanks for opening though!
Activity
dstansby commentedon Jul 8, 2022
It looks like you have a points layer selected on the left - the slice widget will only work with image layers, so if you click the
hires
layer hopefully it works? We should definitely add a helpful messgage in the widget that says to select anImage
layer though, so thanks for reporting this!sophieRAIBAUD commentedon Jul 25, 2022
ok thanks !!
I have 2 question then :)
this slice seams to work (y axis = 0 ?)


this one is very strange (values of x between 0 and 2...)
would you consider to work on spatial transcriptomic data ?
on the pont data I have is a gene whose expression was measured in each dot
many many thanks !
Sophie
dstansby commentedon Oct 19, 2022
Could you eplain a bit more why the second image is a bit strange? It looks the same as the first image to me.
napari-matplotlib
is meant to be a very broad and generic package, so it won't include any research area specific features. If there are any generic features you are insterested in adding suggestions would be super welcome!sophieRAIBAUD commentedon Oct 19, 2022
working on spatial transcriptomic data would be great. There is a plugin for napari by squipy team

what I woul like to have is extraction og genes expression under 1 spot...
dstansby commentedon Nov 16, 2022
I think this is out of scope for
napari-matplotlib
, as it is designed to have generic tools that can be used on any data types - thanks for opening though!