Evidence map›Paper›PMID 42260310›Full record

ArticleNature methods2026

Chromatix: a differentiable, GPU-accelerated wave-optics library.

Diptodip Deb, Gert-Jan Both, Eric Bezzam, Amit Kohli, Siqi Yang, Amey Chaware, Cédric Allier, Changjia Cai, Geneva Anderberg, M Hossein Eybposh and 20 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature methods, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

30 authors.

Diptodip Deb *HHMI Janelia Research Campus, Ashburn, VA, USA. debd@janelia.hhmi.org.ORCID http://orcid.org/0000-0002-5352-3337
Gert-Jan Both *HHMI Janelia Research Campus, Ashburn, VA, USA. bothg@janelia.hhmi.org.ORCID http://orcid.org/0000-0002-5233-5203
Eric BezzamAudiovisual Communications Laboratory, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
Amit KohliDepartment of Electrical Engineering and Computer Sciences, UC Berkeley, Berkeley, CA, USA.ORCID http://orcid.org/0000-0002-8328-9465
Siqi YangChandra Family Department of Electrical and Computer Engineering, The University of Texas at Austin, Austin, TX, USA.
Amey ChawareDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0003-1548-0740
Cédric AllierHHMI Janelia Research Campus, Ashburn, VA, USA.
Changjia CaiDepartment of Applied Physical Sciences, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.ORCID http://orcid.org/0000-0002-1091-5365
Geneva AnderbergDepartment of Radiology, University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0002-6950-2506
M Hossein EybposhDepartment of Applied Physical Sciences, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
Magdalena C SchneiderHHMI Janelia Research Campus, Ashburn, VA, USA.ORCID http://orcid.org/0000-0002-3771-8353
Rainer HeintzmannLeibniz Institute of Photonic Technology, Jena, Germany.
Fabrizio A Rivera-SanchezImaging Physics, Faculty of Applied Sciences, Technische Universiteit Delft, Delft, The Netherlands.ORCID http://orcid.org/0009-0001-5688-1850
Corey SimmererDepartment of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA.
Guanghan MengDepartment of Electrical Engineering and Computer Sciences, UC Berkeley, Berkeley, CA, USA.ORCID http://orcid.org/0000-0001-7620-2205
Jovan Tormes-VaqueranoDepartment of Applied Physical Sciences, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
SeungYun HanDepartment of Applied Physics, Yale University, New Haven, CT, USA.ORCID http://orcid.org/0000-0003-3344-3214
Sibi Chakravarthy ShanmugavelChandra Family Department of Electrical and Computer Engineering, The University of Texas at Austin, Austin, TX, USA.
Teja MaruvadaDepartment of Electrical and Computer Engineering, Johns Hopkins University, Baltimore, MD, USA.ORCID http://orcid.org/0009-0008-0543-4453
Xi YangDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.
Yewon KimDepartment of Mechanical Engineering, Yonsei University, Seoul, Republic of Korea.ORCID http://orcid.org/0009-0007-7086-2158
Benedict DiederichLeibniz Institute of Photonic Technology, Jena, Germany.ORCID http://orcid.org/0000-0003-0453-6286
Chulmin JooDepartment of Mechanical Engineering, Yonsei University, Seoul, Republic of Korea.ORCID http://orcid.org/0000-0002-1812-2976
Laura WallerDepartment of Electrical Engineering and Computer Sciences, UC Berkeley, Berkeley, CA, USA.ORCID http://orcid.org/0000-0003-1243-2356
Nicholas J DurrDepartment of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA.ORCID http://orcid.org/0000-0001-9808-7383
Nicolas C PégardDepartment of Applied Physical Sciences, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.ORCID http://orcid.org/0000-0003-2868-7118
Patrick J La RivièreDepartment of Radiology, University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0003-3415-9864
Roarke HorstmeyerDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0002-2480-9141
Shwetadwip ChowdhuryChandra Family Department of Electrical and Computer Engineering, The University of Texas at Austin, Austin, TX, USA.ORCID http://orcid.org/0000-0002-6142-0231
Srinivas C TuragaHHMI Janelia Research Campus, Ashburn, VA, USA. turagas@janelia.hhmi.org.ORCID http://orcid.org/0000-0003-3247-6487

Funding

Imaging deep-tissue morphogenesis at whole-organism scalesR35GM155424 · NIGMS · UNIVERSITY OF TEXAS AT AUSTIN · PI Shwetadwip Chowdhury · 2024 to 2026
$1.0M
National Research Foundation of Korea (NRF) No.2023R1A2C3004040NIGMS NIH HHS R35 GM155424
6 · The paper itself

Abstract

Many current microscopy methods incorporate computational modeling as an integral part of the imaging process, either to solve inverse problems or optimize the optical system design itself. These methods often depend on differentiable optics simulations, yet no standardized framework exists, forcing computational optics researchers to repeatedly and independently implement simulations with limited reusability and performance. These common problems limit the potential impact of computational optics as a field. Here we present Chromatix: an open-source, graphics processing unit (GPU)-accelerated, differentiable wave-optics simulation library. Chromatix builds on JAX to democratize fast, parallelized simulation of diverse optical systems and expand the design space in computational optics. Chromatix standardizes a growing collection of optical elements and propagation methods allowing a broad range of applications, which we demonstrate here for snapshot microscopy, holography and phase retrieval. We demonstrate speed improvements of 2-6 times on a single GPU and up to 22 times on 8 GPUs.

Indexed as

Computer GraphicsImage Processing, Computer-AssistedMicroscopyOptics and PhotonicsSoftwareAlgorithmsComputer SimulationHolography

Identifiers

PMID42260310
PMCPMC13345901

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.