Catrex GUI

Versione 1.0.0 (444 KB) da Jesus Perez
Graphical user interface to extract calcium transients from imaging experiments. Get raster of neuronal activity from a raw tiff file.
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Aggiornato 28 lug 2020
Visualizza la licenza su GitHub

GUI in MATLAB for automated calcium transients extraction from imaging experiments.

1. Load tiff file with the sequence of images acquired.
2. Perform non-rigid (or rigid) motion correction.
3. Find cells based on Suite2P algorithm (Pachitariu et al., 2016).
4. Evaluate ROIs identified (area, circularity, perimeter, eccentricity and overlapping).
5. Extract calcium transients using local neuropil as the basal of fluorescence.
6. Evaluate peak signal-to-noise ratio (PSNR).
7. Perform spike inference (foopsi; Friedrich & Paninski, 2016).
8. Get raster activity, a binary matrix where each row is the activity of a single ROI.

Output of a structure variable with all data analyzed

Cita come

Jesus Perez (2024). Catrex GUI (https://github.com/PerezOrtegaJ/Catrex_GUI/releases/tag/V1.0.0), GitHub. Recuperato .

Compatibilità della release di MATLAB
Creato con R2020a
Compatibile con qualsiasi release
Compatibilità della piattaforma
Windows macOS Linux
Categorie
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Ispirato da: Suite2P, CaImAn

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Versione Pubblicato Note della release
1.0.0

Per visualizzare o segnalare problemi su questo componente aggiuntivo di GitHub, visita GitHub Repository.
Per visualizzare o segnalare problemi su questo componente aggiuntivo di GitHub, visita GitHub Repository.