Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / MouseLand/suite2p issues and pull requests

#935 - BUG: jupyter/Run Suite2p.ipynb not working

Issue - State: closed - Opened by nspiller over 1 year ago - 1 comment

#934 - BUG: error when saving ops file in gui

Issue - State: closed - Opened by ransona over 1 year ago - 1 comment

#933 - FEATURE: multi-session ROI matching

Issue - State: open - Opened by rozmar over 1 year ago - 6 comments
Labels: enhancement

#932 - ROI classification into somas, dendrites and rest?

Issue - State: closed - Opened by samupicard over 1 year ago - 1 comment

#931 - FEATURE: Allow loading of NWB files with image data

Issue - State: closed - Opened by rly over 1 year ago - 2 comments
Labels: enhancement

#930 - BUG: Input array broadcast error when th_badframes = 0

Issue - State: closed - Opened by evanpc over 1 year ago - 13 comments

#929 - manual labeling extraction

Issue - State: open - Opened by immj22 over 1 year ago - 3 comments
Labels: bug, GUI

#928 - Fixes 2channel manual labeling, saving new default ops, and save_nwb issues.

Pull Request - State: closed - Opened by chriski777 over 1 year ago - 1 comment

#927 - BUG: ops['subfolders'] ignored when loading in GUI

Issue - State: open - Opened by samupicard over 1 year ago - 5 comments

#926 - ROI merge not working

Issue - State: closed - Opened by yz22015 over 1 year ago - 1 comment

#925 - conform to function signature and usage pattern a few lines above

Pull Request - State: closed - Opened by itsb almost 2 years ago

#923 - nd2 support

Pull Request - State: closed - Opened by tdincer almost 2 years ago - 6 comments

#922 - BUG: ValueError

Issue - State: closed - Opened by hhh22134 almost 2 years ago

#921 - wobbly registration

Issue - State: closed - Opened by sdaste almost 2 years ago - 3 comments

#919 - suite2p GUI doesn't register or show red channel

Issue - State: closed - Opened by KazanovI almost 2 years ago

#918 - meanImg, meanImgE source error in skipping registration

Issue - State: open - Opened by yz22015 almost 2 years ago

#916 - DOC: Outdated ops.npy documentation

Issue - State: closed - Opened by nspiller almost 2 years ago - 1 comment

#915 - Cellpose error and out of memory error in suite2p 0.10.3

Issue - State: open - Opened by ziyizhu1996 almost 2 years ago - 4 comments
Labels: bug

#914 - cannot load or save options in suite2p 0.12.0

Issue - State: closed - Opened by ziyizhu1996 almost 2 years ago - 1 comment

#909 - NWB RoiResponseSeries outputs are transposed

Issue - State: closed - Opened by rly almost 2 years ago - 5 comments

#906 - how to import ROIs from a previous file?

Issue - State: closed - Opened by clarosa88 almost 2 years ago - 5 comments

#905 - Potentially duplicate/missing backgrounds in NWB file

Issue - State: closed - Opened by tuanpham96 almost 2 years ago - 1 comment

#904 - Error in manual labeling in 2 channel analysis

Issue - State: closed - Opened by faezehrabbani97 almost 2 years ago - 1 comment

#903 - TypeError when running suite2p on sample data

Issue - State: closed - Opened by jacobaclay almost 2 years ago - 2 comments

#902 - `sig_baseline` unit for spike deconvolution

Issue - State: closed - Opened by tjjlemaire almost 2 years ago - 1 comment

#898 - Run suite2p window not scaled to screen

Issue - State: open - Opened by jacobaclay about 2 years ago - 3 comments
Labels: enhancement, GUI

#896 - Axon ROI Segmentation

Issue - State: closed - Opened by rolesandoval about 2 years ago - 1 comment

#894 - Order of ROIs in the different outputs

Issue - State: closed - Opened by faezehrabbani97 about 2 years ago - 1 comment

#891 - Cannot load tiffs processed via imageJ even when saved as OME-TIFFs

Issue - State: closed - Opened by jaimemcc about 2 years ago - 4 comments

#890 - Removing garbage collection speeds up tiffs loading

Issue - State: open - Opened by ZhaoBin-Li about 2 years ago - 4 comments

#884 - Merging already merged ROI with original ROI fails

Issue - State: closed - Opened by vegardkb about 2 years ago - 2 comments

#882 - error using sbx files (converting sbx to binary)

Issue - State: closed - Opened by s-j-k about 2 years ago - 1 comment

#880 - multiplane_parallel in an HPC (Slum)

Issue - State: closed - Opened by nerf-common about 2 years ago - 2 comments

#878 - cannot reshape array of size 0 into shape (0,newaxis)

Issue - State: closed - Opened by faezehrabbani97 about 2 years ago - 2 comments

#877 - Values when exporting to .csv differ from F.npy

Issue - State: closed - Opened by suryadi-t about 2 years ago - 1 comment

#876 - Shape mismatch error

Issue - State: closed - Opened by Andrew-ell about 2 years ago - 6 comments

#875 - Possibility to label ROIs in different groups

Issue - State: closed - Opened by maristanye about 2 years ago - 1 comment

#870 - Registration error with h5 files

Issue - State: closed - Opened by GergelyTuri about 2 years ago - 10 comments

#845 - Cell detection only from channel 2 (red) and purely anatomical

Issue - State: closed - Opened by generalciao over 2 years ago - 3 comments

#836 - implement rotation of manual ROIs

Pull Request - State: closed - Opened by amorsi1 over 2 years ago - 1 comment

#835 - Non-volumetric mesoscope data processing

Issue - State: open - Opened by CBroz1 over 2 years ago - 4 comments
Labels: bug, enhancement

#833 - Bug fixing in from_stat_dict in \detection\stats.py

Pull Request - State: closed - Opened by Yannan-Chen over 2 years ago - 1 comment

#819 - Unable to view registered and raw binary files together in GUI

Issue - State: closed - Opened by Nick3151 over 2 years ago - 3 comments

#815 - Memory error with torch fft

Issue - State: closed - Opened by alex-attinger over 2 years ago - 6 comments
Labels: bug

#809 - nd2 support

Pull Request - State: closed - Opened by tdincer over 2 years ago - 5 comments

#807 - rotate ROI in manual mode

Issue - State: open - Opened by GXinxin over 2 years ago - 7 comments
Labels: GUI, GUI enhancement

#806 - run nwb conversion regardless of moved files

Issue - State: closed - Opened by vickerse1 almost 3 years ago - 6 comments
Labels: enhancement

#801 - Dendritic ROI Segmentation

Issue - State: closed - Opened by wisamreid almost 3 years ago - 3 comments
Labels: help wanted

#798 - Modifying `batch_size` parameter changes motion correction results when setting `smooth_sigma_time != 0`

Issue - State: closed - Opened by morriscb almost 3 years ago - 2 comments
Labels: documentation

#795 - Using Zarr for processing datasets in Suite2p

Issue - State: closed - Opened by jmdelahanty almost 3 years ago - 2 comments
Labels: enhancement, low priority

#790 - RCaMP1b

Issue - State: closed - Opened by MikiBii almost 3 years ago - 1 comment
Labels: help wanted

#789 - "iplane" data is missing in stat.npy files with manually selected ROIs (but exist in stat_orig.npy)

Issue - State: closed - Opened by ahsenko almost 3 years ago - 1 comment
Labels: bug, GUI

#786 - Red Cell button for GUI

Pull Request - State: closed - Opened by IanMGriff almost 3 years ago - 1 comment

#778 - GUI Sparse Mode Parameter

Issue - State: closed - Opened by maya-hopkins about 3 years ago - 4 comments

#766 - making merging permanent and fixing some bugs to the merge process

Pull Request - State: closed - Opened by pwang724 about 3 years ago - 4 comments

#764 - POC: append output to input NWB file

Pull Request - State: closed - Opened by chrisroat about 3 years ago - 6 comments

#762 - ROI XY coordinate

Issue - State: closed - Opened by RisaIguchi about 3 years ago - 3 comments
Labels: documentation

#758 - Running suite2p from Jupyter Notebook on a HPC

Issue - State: closed - Opened by sarahapark about 3 years ago - 13 comments

#757 - Max projection in combined is all zeros if excluding flyback planes

Issue - State: closed - Opened by asumser about 3 years ago - 3 comments
Labels: bug

#747 - F_chan2 and Fneu_chan2 are not saved to .mat file

Issue - State: closed - Opened by generalciao about 3 years ago - 4 comments
Labels: enhancement, good first issue

#746 - Link NWB data when using NWB on input & output

Issue - State: open - Opened by chrisroat about 3 years ago - 8 comments
Labels: enhancement

#725 - solved - no multi-threading on AMD EPYC 7702P 64-Core during registration -- how to speed up AMD processing?

Issue - State: open - Opened by trose-neuro about 3 years ago - 27 comments
Labels: documentation

#720 - Weird Error with cellpose

Issue - State: closed - Opened by kaixiangkee about 3 years ago - 6 comments

#717 - Ability to clear a selected path and select a new path in ops window

Issue - State: open - Opened by sarahapark over 3 years ago - 1 comment
Labels: enhancement, GUI

#709 - Issue with custom classifier

Issue - State: closed - Opened by elisabusha over 3 years ago - 2 comments

#698 - comment sbxreader nchannels overwrite

Pull Request - State: closed - Opened by orena1 over 3 years ago - 6 comments

#697 - Dev

Pull Request - State: closed - Opened by carsen-stringer over 3 years ago

#694 - Neurodroid patch 3

Pull Request - State: closed - Opened by carsen-stringer over 3 years ago - 1 comment

#677 - Analyzing data with negative-going calcium transients

Issue - State: closed - Opened by mheinrich99 over 3 years ago - 3 comments
Labels: enhancement

#669 - Import predefined ROI in suite2p GUI

Issue - State: closed - Opened by SimonZamora over 3 years ago - 2 comments
Labels: GUI, GUI enhancement

#662 - issues of locating ops.npy and db.npy

Issue - State: closed - Opened by Ququkiwi over 3 years ago - 19 comments

#626 - EP merge

Pull Request - State: closed - Opened by carsen-stringer almost 4 years ago - 2 comments

#608 - Error preventing batch running of suite2p

Issue - State: closed - Opened by tomsains almost 4 years ago - 16 comments
Labels: bug, GUI

#598 - calculating dF/F0

Issue - State: open - Opened by charlesphi almost 4 years ago - 4 comments
Labels: enhancement

#590 - Can rotations be enabled for manual segmentation?

Issue - State: closed - Opened by diegoasua almost 4 years ago - 7 comments
Labels: enhancement

#528 - Any plans for manual classification of red cells through the GUI?

Issue - State: closed - Opened by nmlynaryk about 4 years ago - 5 comments
Labels: enhancement

#520 - EnsemblePursuit implementation

Pull Request - State: closed - Opened by mariakesa over 4 years ago - 1 comment

#336 - feature request for visualizing multiday recordings in a trial based manner

Issue - State: closed - Opened by zcq0730 over 4 years ago - 3 comments
Labels: enhancement, GUI

#311 - Using suite2p to detect entire microglia cells

Issue - State: closed - Opened by johnw-25 over 4 years ago - 4 comments

#304 - saving binary to save_path when using fast_disk?

Issue - State: closed - Opened by hummuscience over 4 years ago - 3 comments
Labels: enhancement

#295 - Analyze longitudinal data

Issue - State: closed - Opened by sarahapark over 4 years ago - 16 comments
Labels: enhancement

#292 - Use masks from cellpose as a seed for suite2p

Issue - State: closed - Opened by hummuscience over 4 years ago - 27 comments
Labels: enhancement

#233 - ops for RGECO

Issue - State: closed - Opened by tai-heinzerling about 5 years ago - 5 comments

#228 - Red cell add/subtract in GUI

Pull Request - State: closed - Opened by carolyngs over 5 years ago - 1 comment

#160 - Memory error upon running Suite2p

Issue - State: closed - Opened by Benjamin-Pasternak over 5 years ago - 13 comments

#131 - Load registered data from the saved binary instead of the .tiff?

Issue - State: closed - Opened by PhantomSpike almost 6 years ago - 7 comments