Allen Institute for Neural Dynamics's Projects
This internal repository is for workflows that may be used by other workflows
Metadata entry using javascript
Repository to help gather and map metadata from different sources
Service to retrieve Labtracks/Sharepoint info using a REST API
Upgrade JSON metadata from old versions of aind-data-schema
Metadata Validation
Python package for the generation of neuroglancer links
Generates meshes for neuroglancer visualization
Repo for Ophys utils
Evaluating Registration and Stitching
Evaluates neuron segmentations in terms of statistics related to the number of splits and merges
Image processing capsule to remove streaks from light-sheet images.
SmartSPIM evaluation capsule
SmartSPIM module to generate OMEZarr data from fused images
Creates max intensity projections (MIPs) from light sheet volumes across all three axes
Repository that hosts the SmartSPIM pipeline code
Takes the output of segmentation and ccf registration to calculate cell counts per brain region
segmentation module for SmartSPIM cloud pipeline
Stitching and fusion pipeline in the cloud
Data validation scrips for the SmartSPIM data.
Capsule to load and interact with the Visual Behavior 2P dataset
A repository for the aind-bci-no-movement experiment
A repository for the aind-force-foraging experiment
A repository with code to implement and specificy automatic stage progression through a predefined curriculum