CaImAn

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Right now the CLI demos and the Jupyter demos occupy an unfortunate middle ground in terms of similarity - because they (mostly) are the results of a fork that happened...

pgunn

Bridge to Pynapple

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I will work on connecting Caiman to Pynapple so that we have a bridge there to save final results of Caiman in a way that they can easily be loaded...

EricThomson

implement type checks and better error messages when creating `CNMFParams`

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Just got this idea from an issue that a user told me about, they tried to set `gSig_filt` as an `int` instead of `Tuple[int, int]`.

kushalkolar

When movie shown in `embed_opencv` mode (currently in dev), it flickers. I'm not sure of the fix. We discussed it some in the PR #1080 and I posted a movie...

EricThomson

We should have a demo notebook for seeding with CNMFE, as discussed in issued #865, #1130 , basically modeled after the cnmf seeding demo.

EricThomson

Tracking task: Migrate from tensorflow to pytorch (or possibly numba)

8

In the long term, tensorflow as a software package is on its way out; there hasn't been an official announcement from Google yet (to my knowledge), but Google has diverted...

pgunn

The Wiki still contains some useful information that isn't in the docs. It would be helpful to actively move any remaining information that is not purely redundant from the wiki...

EricThomson

For debugging, reproducibility, modularity, it would be nice to have save/load method built in to the `CNMFParams` class. E.g., if you share your data and want to share the params...

EricThomson

Would be good for speedy parameter search for motion correction. Currently, the motion correction object takes in a filename and parameter set. There is no easy way to specify a...

EricThomson

Running through the cnmf demo notebook, `cnm.estimates.center` is none and should be center of mass of each component. It remains `None` up through running `fit()` and `detrend_df_f(()`. I haven't checked...

EricThomson