BIRD-resources.md

BIRD team links

Data-books

• https://alleninstitute.github.io/openscope_databook
• https://github.com/AllenNeuralDynamics/aind-ophys-mfish-databook

Repos

Analysis

• https://github.com/AllenNeuralDynamics/ophys-mfish-dev
• aind-ophys-utils
• licking behavior

"legacy"

• https://github.com/AllenInstitute/brain_observatory_utilities
• https://github.com/AllenInstitute/brain_observatory_analysis
• https://github.com/AllenInstitute/brain_observatory_qc
• VBA
• AllenSDK

Data-processing

• https://github.com/AllenInstitute/DeepCell/
• https://github.com/AllenInstitute/deepinterpolation_nextflow
• deepinterpolation

*"Legacy"

• mtrain_regimens
• ophys_etl_pipelines

Infrastructure (Code ocean, LIMS, AWS)

• https://github.com/arielleleon/aws_query
• aind-codeocean-api

Capsules

Pipelines