ClandininLab

stimpack

Precise and flexible generation of stimuli for neuroscience experiments.

brainsss

Preprocessing of volumetric neural data on sherlock (motion correction, zscoring, etc)

flystim

Visual stimulus generator for neuroscience experiments

bifrost

Template building and multi-modal registration

visanalysis

Analysis environment for visprotocol imaging experiments

fictrac

A webcam-based method for tracking spherical motion and generating fictive animal paths.

labpack

Lab-specific stimuli, config, and resources to be used with stimpack

pasna-acr-currbio2021

Original data and analysis code for Carreira-Rosario et al. "Mechanosensory input during circuit formation shapes Drosophila motor behavior through Patterned Spontaneous Network Activity", Current Biology 2021.

sleep-analysis

Library for analyzing Drosophila Activity Monitor data

2pstim

Custom-written code for visual stimulus presentation (Clark et al. 2011)

brainsss2

refactor of the brainsss repo for 2-photon imaging analysis

brukerbridge

containers

Commonly used containers and scripts to build them

dataflow

goal-driven-ANNs

lightcrafter

modules

Custom `lmod` modules for use on Sherlock

neurite

Neural networks toolbox focused on medical image analysis

pystrum

A general library of python tools

visprotocol

Visual stimulation protocol and metadata handler for flystim experiments

ANTsPy

Advanced Normalization Tools in Python

brezovec_volition_2023

flyrpc

Library for managing server/client interactions

flyvr

ipp-tools

Collection of IPyParallel tools and helper scripts

L1L2-deblur

multisensory-freezing

python scripts for the ball rig with auditory and visual stimuli

multistim

server/client and gui for presenting audio and visual stimuli to fruit flies

pijm

PIJM is just matplotlib

voxelmorph

Unsupervised Learning for Image Registration