HuBMAP Data Submission

To submit data to HuBMAP please review the HuBMAP Data Submission Guide

HuBMAP Software Documentation

HuBMAP offers several software and tool components for programatic access to HuBMAP data and metadata. This site contains information about this software and tools, more information is available at the HuBMAP Consortium Site or the HuBMAP Data Portal

For an overview of HuBMAP data visit the Data Overview page.


There are several APIs which can be used to search and retrieve information about HuBMAP data. All are linked below in the architecture diagram and on the API Index.


The HuBMAP SDK is a Python library to interface with the Entity API.

HuBMAP Command Line Transfer Tool

The HuBMAP CLT is a stand alone command line tool that enables bulk download of HuBMAP data by specifying the data to be downloaded in a manifest file.

The HuBMAP Microservice Architecture