# Aligning dorsal projection of mouse common coordinate framework with wide-field images of mouse brain **URL:** \ **Category:** Technical\ **Tags:** python, reference-coordinates, allensdk\ **Created:** [April 4, 2019, 1:46am UTC](https://community.brain-map.org/t/aligning-dorsal-projection-of-mouse-common-coordinate-framework-with-wide-field-images-of-mouse-brain/140 "2019-04-04T01:46:34Z")\ **Posts on this page:** 1\ **Showing post:** 4
**Author:** ![michaelsokoletsky](https://avatars.discourse-cdn.com/v4/letter/m/e19b73/32.png) [@michaelsokoletsky](https://community.brain-map.org/u/michaelsokoletsky)\ **Post date:** [August 15, 2019, 9:39am UTC](https://community.brain-map.org/t/aligning-dorsal-projection-of-mouse-common-coordinate-framework-with-wide-field-images-of-mouse-brain/140/4 "2019-08-15T09:39:50Z")
Hi Kelly. That all sounds simple enough, the only problem being that the Allen Brain API does not specify where the bregma and lambda are (as per [this official explanation](https://community.brain-map.org/t/why-doesnt-the-3d-mouse-brain-atlas-have-bregma-coordinates/158)). Given this, what did you estimate as the position of bregma and lambda in the CCF coordinates? I wish I could capture each mouse’s 2P tomography volume and register to the CCF as per [this recent work](https://www.biorxiv.org/content/10.1101/552026v1). Unfortunately, we lack the necessary hardware. EDIT: Based on the Paxinos and Franklin atlas (2012) as well as Allen’s older atlas (2008) which does come with stereotaxic coordinates, I estimated that lambda is at y = 206, bregma is at y = 370, and 1 mm lateral is at z = 195 in the 25 micron volume. Is this close to what you have? This is not a rigorous estimate but combined with a sensory response assay (e.g. visual, somatosensory) may be good enough for delineating large cortical areas. --- _[View the full topic](https://community.brain-map.org/t/aligning-dorsal-projection-of-mouse-common-coordinate-framework-with-wide-field-images-of-mouse-brain/140)._