Tim Sainburg

Predict2D over batches

3

Hey Timo, Do you have code to run predict2D over batches? The only code I can find loops over frames. https://github.com/JARVIS-MoCap/JARVIS-HybridNet/blob/master/jarvis/prediction/predict2D.py#L91 Thanks!

Some errors are given with invisible files in the tutorial e.g. .ds_store for macs. this can be filtered e.g. with paths.py: subdir_list = list((dataset_loc).iterdir()) subdir_list = [i for i in...

### Checklist - [X] I have searched related issues but cannot get the expected help. - [X] 2. I have read the [FAQ documentation](https://github.com/open-mmlab/mmdeploy/tree/main/docs/en/faq.md) but cannot get the expected help....

- That can be inserted at an angle - that can be moved in the depth angle

Translate between one atlas (e.g. starling) and another (e.g. pigeon) to estimate new nuclei coordinates

Some plotting relies on jupyter, and it would be time comsuming to have travis ci download all of the datasets. but there are a few more things that can be...

get rid of it

This argument should be used to specify where a dataset should be downloaded to throughout the whole downloading process

Update Parametric UMAP to support torch backend.

1

There still appear to be some issues when using a jax backend (nans in network weights) that I haven't been able to debug but everything else seems to work.

ids_to_indices is called on indices rather than ids

3

I get the following error: ``` sorting = ss.run_kilosort3( recording_cmr, output_folder=output_folder, remove_existing_folder=True, verbose=True, ) RUNNING SHELL SCRIPT: /n/groups/datta/tim_sainburg/projects/23-02-24-chronic-pipeline/data/spikesorting/tmp/test_ks3/sorter_output/run_kilosort3.sh < M A T L A B (R) > Copyright 1984-2021 The...