Welcome to IDEAS documentation!¶

Learn how to use IDEAS using the following sections:

• Getting Started

  Get oriented to the IDEAS home pages and learn the basics for using IDEAS such as creating a project, uploading and organizing data, and running analysis workflows.

• Analysis Tools

  Learn about the analytical tools offered in IDEAS, including definitions of parameters and descriptions of algorithms.

• Release Notes

  List of features released in each IDEAS version including platform features, new analysis tools, and bug fixes.

• Request Access

  Click here if you would like access to IDEAS!

About IDEAS¶

The Inscopix Data Exploration, Analysis, and Sharing (IDEAS) platform is a comprehensive cloud-based solution for organizing and analyzing miniscope, 2-photon, and behavior data:

• Organize, visualize, annotate, and store your data on a cloud-platform
• Batch process and analyze data using workflows such as end-to-end CNMFe (including steps from preprocessing all the way to cell identification)
• Quickly gain insights from your data using a variety of analytical tools (e.g., use peri-event analysis to quantify signal changes around a specified time window).

New Features¶

See videos below demoing selected new/updated tools!

New Analysis Tools

• CaImAn NoRMCorre to apply rigid or piecewise-rigid motion correction to miniscope movies.
• CaImAn Source Extraction to identify and extract spatial footprints and temporal activity of cells in miniscope movies.
• CaImAn Spike Extraction to infer and extract neural spikes and biosensor kinetics from calcium imaging data using constrained deconvolution
• Estimate Vessel Diameter to measure the diameter of individual blood vessels over time from a movie.
• Convert TIFF to ISXD to convert tiff movies to the isxd format.
• Recover Corrupt ISXD Movie to recover movie data from a corrupted isxd movie file.
• Smoothen Movie Across Time to spatially smoothen a movie by computing a pixel-wise rolling average across time.
• Downsample Traces to temporally downsample cellular activity in cell sets.

New Platform Features

• Users can now draw blood vessel line ROIs.
• Org administrators can download usage table as a csv report.
• Improved project display and sorting allowing a new "Grid" view to see a table of projects.
• New series creation and ordering experience that automatically orders files based on timing metadata. Manual ordering is possible when timing metadata is unavailable.
• Data previews were converted from png to svg to allow flexibility in downstream editing of figures.
• User can directly email support from any page in IDEAS.
• Users can now dismiss all unread notifications at once.
• Added support for multichannel and multiplane Ultima2P data.

See the Release Notes for a complete list of all the latest features and bug fixes.

Demos for Selected New/Updated Tools¶