Zebromes

A joint project between NeuroData and Florian Engert's lab to study zebrafish

Data

Tools

CalmAn

Computational toolbox for large scale Calcium Imaging Analysis

Data visualization

ndviz

NeuroDataViz (ndviz) is a web tool for viewing datasets stored using NeuroData Database Store software.

Image registration

ndreg

ndreg is a Python package that performs non-linear affine and deformable image registration.

Image stack upload/download

ndex

ndex allows exchange of large image volumes with NeuroData

Web frontend for data

ndwebtools

ndwebtools is a web application that provides NeuroData tools for managing and viewing data on NeuroData's spatial database store.

Publications

D. G. C. Hildebrand et al. Whole-brain serial-section electron microscopy in larval zebrafish. Nature, (7654)545:345, 2017.

O. Randlett et al. Whole-brain activity mapping onto a zebrafish brain atlas. Nature Methods, (11)12:1039-1046, 2015.

People on project

Ben Falk Software Engineer
Florian Engert
Joshua Vogelstein Director
Onyeka Nnaemeka
Owen Randlett

Funding

U19 1U19NS104653-01