Apr 06, 2023
Image Registration of MALDI IMS to Microscopy
Forked from Image Registration of MALDI IMS to Microscopy
- Nathan Heath Patterson1,
- Jamie Allen1,
- Angela R.S. Kruse1,
- allison.b.esselman1,
- Ellie Pingry1,
- Danielle Gutierrez1,
- Jeff Spraggins1
- 1Vanderbilt University
Protocol Citation: Nathan Heath Patterson, Jamie Allen, Angela R.S. Kruse, allison.b.esselman, Ellie Pingry, Danielle Gutierrez, Jeff Spraggins 2023. Image Registration of MALDI IMS to Microscopy. protocols.io https://dx.doi.org/10.17504/protocols.io.5qpvor6xxv4o/v1
License: This is an open access protocol distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Protocol status: Working
We use this protocol and it's working
Created: April 05, 2023
Last Modified: October 18, 2023
Protocol Integer ID: 80064
Keywords: HuBMAP, BIOMIC, Vanderbilt, Multimodal Imaging, IMS, Image Registration
Abstract
Scope:
To process to register MALDI IMS images to different types of microscopy images using IMS MicroLink and WSIREG.
Install Napari with IMS MicroLink plugin using https://github.com/NHPatterson/napari-imsmicrolink
Use MicroLink to align laser ablation marks from the post autofluorescence image to the IMS pixel map.
Install the WSIREG plugin with Napari https://github.com/NHPatterson/wsireg
Use WsiReg to align other microscopy modalities. These modalities are aligned to the post autofluorescence image.
When complete, all images will be sampled in the same coordinates as the IMS pixel map.