MESmerize

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Extract and load metadata from Zeiss czi image stacks

10

**Is your feature request related to a problem? Please describe.** Thank you for writing and sharing the software with the research community. I have installed mesmerize 0.7.1 on Windows 10...

JCKMes

[BUG] CNMFe error

2

Describe the bug I can import a .tif file using the tiff importer and json_minimal metadata importer. Further, I can run motion correction and inspect the correlation and PNR after...

WhereWolf72

Script Editor not opening

3

Hi, when I try to open the Script Editor, I get the following error message in the Anaconda Powershell Promt: EXCEPTION ENCOUNTERED Traceback (most recent call last): File "C:\Users\xxxx\Anaconda3\envs\mesmerize\lib\site-packages\mesmerize\viewer\main_window.py", line...

BenjaminEscribano

- [ ] conda install process: install mesmerize in conda env after installing caiman - [ ] Check that latest pandas works with h5py v2.10.0 - [ ] update mesmerize...

kushalkolar

[BUG] <Loading k-shape project plot error>

7

**Describe the bug** I've performed the K-shape analysis and saved the plot within the project as a .ptrn file. If I reopen Mesmerize and try to access the k_shape plot...

pr4deepr

restricting CNMF ROI detection to specific regions of the image

1

Hi guys I have a question about performing CNMF detection. I would like to perform the ROI detection on an area of interest. For example, the highlighted area with dotted...

pr4deepr

fix the edge artifact problem with correlation plot

3

Fix for issue 62: https://github.com/kushalkolar/MESmerize/issues/62 Basically, set `bord_px` to 0. I have been manually doing this with every install of mesmerize for a while, and it seems to cause no...

EricThomson

Being worked on by @EricThomson Export the following to csv using a button in the ROI manager, see PR #90 - [x] `cnmf.estimates.C - [ ] `cnmf.estimates.S` - [ ]...

kushalkolar

[BUG] correlation_pnr() output has edge artifacts not present when I run same in caiman

15

**Describe the bug** When I run the "inspect correlation and pnr" step of cnmfe and look at the image, there are very large edge artifacts in both the correlation image...

EricThomson

Added an 'export curves' button to roi manager to let people export raw calcium traces. This is a minimal initial working branch, in the sense that in we will probably...

EricThomson