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

ndboss

NeuroData's deployment of APL's BOSS spatial database, which we use to store 30+ public datasets comprising 100+ terabytes of open data.

ndpull

Command-line program to download large volume image data from NeuroData.

ndpush

Command-line program to ingest large volume image data into the cloud using APL's BOSS spatial database.

ndreg

The Neurodata Registration module or ndreg is a set of python functions which can be used to align pairs of images.

ndviz

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

ndwebtools

Web application that provides NeuroData tools

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