Careers

Image Annotator, Neural Circuits and Algorithms (CCN)
Full-time|New York, NY

Reporting to the Research Scientist, the Image Annotator will be a member of the Neural Circuits and Algorithms group of CCN. They will work on the project to map the brain on the synaptic level (or assemble the connectome) of a mini-insect in collaboration with other members of this group. This work requires ability to work with images, 3D visualization, and meticulous attention to detail. This is a great opportunity for someone interested in Neuroscience and/or Biology, wants to be a part of a dynamic team, and wants to learn software skills.

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Application deadline: Rolling
Summer Research Intern (Undergraduate, Graduate or Pre-doctoral), CCM
Full-time|New York, NY

Applications are invited for paid, full-time research internships at the Center for Computational Mathematics (CCM) in all our active areas of research. CCM is one of five centers of the Flatiron Institute, an internal research division of the Simons Foundation. Our mission at CCM is to create new mathematical approaches, algorithms and software to advance scientific research in multiple disciplines, often in collaboration with other Flatiron Centers.

Tremendous opportunities exist at the intersection of mathematics, computer science, statistics, and their scientific applications, with the lines between theory, algorithm development and software implementation often blurred. Beyond the creation of new simulation and analysis methods, a major goal of CCM is to make these methods available to the scientific community. The Center also hosts an array of meetings, workshops and conferences, serving as a focal point for the field internationally.

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Application deadline: January 15, 2024
Research Scientist (Open Rank), CCM
Full-time|New York, NY

Applications are invited for either the Research Scientist or Senior Research Scientist level at the Center for Computational Mathematics (CCM), in the Flatiron Institute, in all our active areas of research. These include:

• machine learning, especially the areas of optimization, learning theory, probabilistic modeling, deep learning, and high dimensional data analysis, as well as applications of scientific interest at Flatiron (e.g., cosmological modeling, quantum many-body systems, computational neuroscience)

• statistical methodology, modeling, and inference

• probabilistic and differential programming

• computational physics, including biophysics, statistical mechanics, fluid mechanics, quantum physics, and molecular dynamics

• numerical methods for partial differential equations and integral equations

• signal and image processing, with a particular focus on cryo-electron microscopy

• numerical analysis, including numerical linear algebra and high-order methods

• high performance computing and open source software libraries

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Application deadline: January 15, 2024
Associate Research Scientist, CCQ
Full-time|New York, NY

Applications are invited for an Associate Research Scientist position at CCQ in the field of Computational Theory of Correlated Materials. Applicants should have a strong background in the development and use of computational methods combining electronic structure and many-body approaches for explaining and predicting properties of materials with strong electronic correlations, and a strong research agenda in the field of quantum materials.

Directed by Antoine Georges and co-directed by Andrew Millis, the Center for Computational Quantum Physics (CCQ), located in New York City, is a leading international center for the study of equilibrium and non-equilibrium many-body quantum systems, with applications to condensed matter physics, materials science, chemistry and related fields. The development of the concepts, algorithms and code libraries needed to advance the field is fundamental to the work of the center. Research projects currently pursued at CCQ cover a broad range of methods and interest.

Review of applications will start on or about February 1, 2024 and continue until the position is filled.

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Application deadline: Rolling
Summer Research Assistant/Associate, CCQ
Full-time|New York, NY

The Center for Computational Quantum Physics invites applications for seasonal, full-time research interns interested in developing and implementing the concepts, algorithms and codes needed to understand the quantum mechanical behavior of many-particle systems, and to translate this understanding into useful predictions of the behavior of molecules and materials. Under the mentorship of one or more CCQ scientists during the summer, Research Assistants/Associates will contribute to CCQ research by joining an ongoing research project.

The Simons Foundation is committed to cultivating an inclusive work environment and provides equal opportunities to all employees and applicants for employment without regard to race, religion, color, age, sex, national origin, sexual orientation, gender identity, genetic disposition, neurodiversity, disability, veteran status, or any other protected category under federal, state and local law.

This is a paid position. The summer 2024 internship period is from May 28 to August 9. The deadline for applications is January 15, 2024.

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Application deadline: January 15, 2024
Summer Research Intern (Undergraduate, Graduate, Pre-Doctoral), CCB
Full-time|New York, NY

The Center for Computational Biology (CCB) of the Simons Foundation’s Flatiron Institute aims to advance the understanding of fundamental and historically challenging biological processes by developing theory, innovative modeling tools for large-scale biophysical simulations, and computational frameworks for analyzing increasingly large and complex experimental datasets. Living systems are built hierarchically; as such, CCB’s research activities span several scales of biological organization, bridging the gap between microscopic detail and large-scale behaviors, and providing natural continuity between our groups’ efforts. CCB currently comprises more than 45 research and data scientists at career stages from recent Ph.D. graduates through senior scientists, as well as visiting scientists, guest researchers, graduate students, interns, and administrative support staff. For a full description of CCB research areas and scientific staff, please see our website.

The Center for Computational Biology (CCB) invites applications for our Summer Research Assistant (undergraduate-level interns), Summer Research Associate (graduate-level interns) and Summer Pre-Doctoral Researcher (2 years of PhD-level studies, started thesis and actively working PIs) internship position(s).

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Application deadline: January 15, 2024
Associate Research Scientist / Research Scientist – Software, CCN
Full-time|New York, NY

Applications are invited for an Associate Research Scientist or Research Scientist – Software with expertise in developing open-source software in support of statistical and machine learning applications in neuroscience. The level of the position will depend on experience and qualifications. This full-time position offers an exceptional career opportunity at the interface of science and computing, with flexibility to be immersed in frontier scientific research while focusing on the dissemination and support of research advances through computing, algorithms, and technical support. The Associate Research Scientist level is a term-limited position

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Application deadline: Rolling
Flatiron Research Fellow, Computational Vision, CCN
Full-time|New York, NY

Applications are invited for Flatiron Research Fellowships in the Laboratory for Computational Vision, at the Center for Computational Neuroscience, within the Flatiron Institute of the Simons Foundation. The research of the group is focused on analysis and representation of visual information, including empirical study of the structures of visual scenes, development of mathematical/statistical theories for representation and processing that structure, implementation and simulation of biologically plausible instantiations of these theories, and development of associated machine vision methods.

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Application deadline: Rolling
Open Rank, Foundational Models for Science (AI/Machine Learning)
Full-time|New York, NY

The Simons Foundation’s Flatiron Institute seeks a full-time open-rank research position with a strong focus on software development and support as part of its new initiative, Foundational Models for Science.  The final hire may be classified either as a Research Analyst or Flatiron Research Fellow, depending on educational background and experience.  Recent advances in machine learning, including Large Language Models and diffusion-based generative models have driven significant advances in Artificial Intelligence. The Flatiron Institute seeks to leverage these ideas to develop the next generation of AI-powered scientific analysis tools, seeking more powerful and more interpretable models with broad applications to many scientific disciplines. Our group includes researchers from multiple scientific disciplines ranging from machine learning, to astrophysics, biology, neuroscience and quantum computing.

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Application deadline: Rolling
Associate Research Scientist/Research Scientist, Initiative for Computational Catalysis (ICC)
Full-time|New York, NY

The Initiative for Computational Catalysis (ICC) of the Simons Foundation’s Flatiron Institute, invites applications for an Associate Research Scientist or Research Scientist. The initial appointment for an Associate Research Scientist is three years, with a possible extension of another three years. Research Scientist positions are not term-limited. Starting dates are flexible, typically between August 2024 and November 2024. Applications will be reviewed beginning in Fall 2023 and considered on a rolling basis until the positions are filled. For full consideration, application by December 8th, 2023 is recommended. Associate Research Scientists/Research Scientists at ICC are researchers who develop theoretical concepts, algorithms and codes, and apply these to obtain new insights into the electronic structure and dynamics of catalyzed chemical reactions.

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Application deadline: Rolling
Flatiron Research Fellow, Initiative for Computational Catalysis (ICC)
Full-time|New York, NY

The Initiative for Computational Catalysis (ICC) of the Simons Foundation’s Flatiron Institute, invites applications for multiple Flatiron Research Fellow and Flatiron Research Fellow-Software postdoctoral positions. The initial appointment is for two years with possible renewal for a third year. Starting dates are flexible, typically between August 2024 and November 2024. Applications will be reviewed beginning in Fall 2023 and considered on a rolling basis until the positions are filled. For full consideration, application by December 8th, 2023 is recommended. Flatiron Research Fellows in ICC are individuals at the postdoctoral level with backgrounds in one or more of the following areas: theoretical chemistry, materials science, condensed matter physics, applied mathematics, or computer science.

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Application deadline: Rolling
Flatiron Research Fellow (Computer Vision), CCB
Full-time|New York, NY

Flatiron Research Fellows in CCB are individuals at the postdoctoral level with backgrounds in one or more of the following areas: applied mathematics, statistics, computational biology, biophysics, computer science, engineering, mathematical physics, or related disciplines. Reporting to Research Scientists, Data Scientists or the Center Director, as appropriate, Fellows are expected to carry out an active research program that can be independently directed and/or involve substantial collaboration with other members of CCB or the Flatiron Institute. In addition to their research, Fellows help build the rich scientific community at CCB and the Flatiron Institute by participating in seminars, colloquia, and group meetings; developing their software, mathematical and computational expertise through internal education opportunities; and sharing their knowledge through scientific publications, presentations, and/or software releases, with the financial support of the Institute. Fellows have access to the Flatiron Institute’s powerful scientific computing resources.

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Application deadline: Rolling
Associate Research Scientist (Computer Vision), CCB
Full-time|New York, NY

CCB seeks a full-time Associate Research Scientist to develop and design new tools using computer vision to enable new discoveries in biology, and, more broadly, computational science.  Areas of current interest include fluorescence reconstruction and image restoration for multi-channel microscopy, self-supervised age estimation using temporal data, and pose estimation for molecular structures in cryo-electron microscopy. However, we are looking for someone who will both collaborate with current work but also pursue their own creative research ideas.
 
We are seeking an Associate Research Scientist with experience in image processing, computer vision, and deep learning research. The ideal candidate will:
 
• Enable CCB biologists and biophysicists to denoise, segment, track, and model biological processes using microscopy
 
• Utilize the latest techniques in computer vision for biology such as self-supervised and contrastive learning, continuous estimation, super-resolution and interpretability
 
• Collaborate with the other Flatiron Institute centers such as computational neuroscience, computational mathematics and computational astrophysics to utilize state-of-the art computer vision methods to extract information from images

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Application deadline: Rolling
Flatiron Research Fellow, CCM
Full-time|New York, NY

Applications are invited for postdoctoral Flatiron Research Fellowships (FRF) at the Center for Computational Mathematics (CCM), in the Flatiron Institute, in all our active areas of research. These include:
 
• computational physics, including statistical mechanics, biophysics, fluid mechanics, quantum physics, and molecular dynamics
• numerical methods for partial differential equations and integral equations
• machine learning, especially the areas of optimization, learning theory, probabilistic modeling, deep learning, and high dimensional data analysis, as well as applications of scientific interest at Flatiron (e.g., cosmological modeling, quantum many-body systems, computational neuroscience)
• statistical methodology, modeling, and inference
• probabilistic and differential programming
• signal and image processing, with a particular focus on cryo-electron microscopy
• numerical analysis, including numerical linear algebra and high-order methods
• high performance computing and open source software libraries

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Application deadline: December 15, 2023
Flatiron Research Fellow, NeuroAI and Geometric Data Analysis, CCN
Full-time|New York, NY

Applications are invited for Flatiron Research Fellowships (FRF) in the NeuroAI and Geometric Data Analysis Group (SueYeon Chung, PI) at the Center for Computational Neuroscience at the Flatiron Institute of the Simons Foundation, whose focus is on understanding computation in the brain and artificial neural networks by: (1) analyzing geometries underlying neural or feature representations, embedding and transferring information, and (2) developing neural network models and learning rules guided by neuroscience. To do this, the group utilizes analytical methods from statistical physics, machine learning theory, and high-dimensional statistics and geometry.The CCN FRF program offers the opportunity for postdoctoral research in areas that have strong synergy with one or more of the existing research groups at CCN or other centers at the Flatiron Institute. In addition to carrying out an independent research program, Flatiron Research Fellows are expected to: disseminate their results through scientific presentations, publications, and software release, collaborate with other members of the CCN or Flatiron Institute, and participate in the scientific life of the CCN and Flatiron Institute by attending seminars, colloquia, and group meetings. Flatiron Research Fellows may have the opportunity to organize workshops and to mentor graduate and undergraduate students.

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Application deadline: Rolling
Infrastructure Software Engineer
Full-time|New York, NY

As a member of SCC, the Infrastructure Software Engineer will provide support for researchers developing, building, documenting, packaging, releasing, and deploying software tools, libraries, and servers; implement automated build and test CI (continuous integration) workflows on Github, Jenkins, and other platforms for these packages as specified by researchers and developers; and work with others in SCC to maintain and develop tools and components supporting storage, networking, and monitoring systems.

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Application deadline: Rolling
HPC Systems Engineer
Full-time|New York, NY

As a member of the SCC team, the HPC Systems Engineer is responsible for the deployment, operation and maintenance of the Flatiron Institute’s Scientific computing infrastructure. The responsibilities include hardware monitoring and replacement for large scale HPC clusters with high-performance interconnects such as InfiniBand and Ethernet.

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Application deadline: Rolling
Flatiron Research Fellow, Neural Circuits and Algorithms, CCN
Full-time|New York, NY

Applications are invited for Flatiron Research Fellowships (FRF) in the Neural Circuits and Algorithms group (Dmitri “Mitya” Chklovskii, PI) at the Center for Computational Neuroscience at the Flatiron Institute of the Simons Foundation, whose focus is on reverse engineering neural computation on the algorithmic level to facilitate building artificial intelligence and treating mental illness. The CCN FRF program offers the opportunity for postdoctoral research in areas that have strong synergy with one or more of the existing research groups at CCN or other centers at the Flatiron Institute. In addition to carrying out an independent research program, Flatiron Research Fellows are expected to: disseminate their results through scientific presentations, publications, and software release, collaborate with other members of the CCN or Flatiron Institute, and participate in the scientific life of the CCN and Flatiron Institute by attending seminars, colloquia, and group meetings. Flatiron Research Fellows may have the opportunity to organize workshops and to mentor graduate and undergraduate students.

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Application deadline: Rolling
Associate Research Scientist, CCQ (Joint Position with CEA-Saclay)
Full-time|New York, NY

The Institute of Theoretical Physics (IPhT) of the CEA-Saclay (French Alternative Energies and Atomic Energy Commission), jointly with the Center for Computational Quantum Physics (CCQ) of the Simons Foundation’s Flatiron Institute, invites applications for a joint position in the area of computational quantum condensed matter physics. The position consists in a full-time CEA permanent position at IPhT/CEA-Saclay, of which the first three years will be spent on “detachement” as a full time Associate Research Scientist employed at the Flatiron Institute’s Center for Computational Quantum Physics (CCQ). Review of applications will start on or about November 15, 2023 and continue until the position is filled.

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Application deadline: Rolling
Flatiron Research Fellow, Connectomics (Neural Circuits and Algorithms), CCN
Full-time|New York, NY

The Center for Computational Neuroscience (CCN) invites applications for Flatiron Research Fellowships (FRFs – our designation for Postdoctoral Fellows) in the Connectomics project of CCN’s neural circuits and algorithms (NCA) group. The goal of the CCN NCA group is to understand how the brain analyzes large and complex datasets streamed by sensory organs in order to aid efforts at building artificial neural systems and treating mental illness. The Connectomics project of the NCA group, specifically, is focused on reconstruction the brain wiring diagram of the microscopic wasp utilizing automated high-throughput reconstruction software, results that are then verified by a team of research analysts who proofread and annotate the software’s work; using this method, the Connectomics project has assembled the largest connectome to date based on synapse count. While the current open position is in the neural circuits and algorithms group only, CCN scientists are encouraged to collaborate across research groups and the wider Flatiron Institute. Interested candidates should review the CCN public website for specific information.

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Application deadline: Rolling
Flatiron Research Fellow, Structural & Molecular Biophysics, CCB
Full-time|New York, NY

The Center for Computational Biology (CCB) of the Simons Foundation’s Flatiron Institute is actively seeking enthusiastic, full-time post-doctoral Flatiron Research Fellows to join its Structural and Molecular Biophysics group. The Structural and Molecular Biophysics team, a collaborative effort between CCB and the Center for Computational Mathematics (CCM) uses computational tools to study biological macromolecules, running long timescale molecular simulations and developing statistical analysis and machine learning tools to better capture the dynamics of these molecules and understand their biological function. Areas of interest include in particular statistical mechanics, membrane protein structural biology, protein modeling with flexibility, cryo-electron microscopy, thermodynamics, modeling the effect of mutations, and intrinsically disordered proteins. Applicants with backgrounds in mathematics, statistics, structural biology, computational chemistry, biochemistry, biophysics, or computer science are especially encouraged to apply. We are further interested in those with backgrounds in software development with skills related to methods development in cryo-EM or molecular dynamics simulation or machine learning in the context of computer vision and 3D reconstruction.

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Application deadline: November 10, 2023
Flatiron Research Fellow, Developmental Dynamics, CCB
Full-time|New York, NY

The Center for Computational Biology (CCB) of the Simons Foundation’s Flatiron Institute is actively seeking enthusiastic, full-time post-doctoral Flatiron Research Fellows to join its Developmental Dynamics group. The Developmental Dynamics group combines experiments, theory and computing to elucidate the contributions of encoded genomic instructions and self-organizing physical mechanisms to embryonic development. Itstheoretical and computational work is designed to integrate and abstract rapidly accumulating heterogeneous datasets, to propose critical tests of multiscale regulatory mechanisms, and to guide our own genetic and imaging experiments. The group’s research is organized around three main themes: the mechanistic modeling of pattern formation and morphogenesis; the synthesis and decomposition of developmental trajectories; and the modeling of human developmental defects. Our theoretical and computational work is designed to integrate and abstract rapidly accumulating heterogeneous datasets, to propose critical tests of multiscale regulatory mechanisms, and to guide our own genetic and imaging experiments. Current areas of interest include small cell clusters, graph dynamics in rearranging cell networks, and the effects of activating mutations in signaling enzymes.

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Application deadline: November 10, 2023
Flatiron Research Fellow, Genomics, CCB
Full-time|New York, NY

The Center for Computational Biology (CCB) of the Simons Foundation’s Flatiron Institute is actively seeking enthusiastic, full-time post-doctoral Flatiron Research Fellows to join its Genomics group. The Genomics group works to interpret genomes and distill the immensely complex networks that form the foundation of human biology and disease, through accurate machine learning models. Current areas of interest include developing deep learning approaches for genome interpretation; development of methods for multi-omic data analysis and integration with phenotypic and clinical data; and machine learning approaches for network modeling and regulatory module detection. These and other methods are developed in tight collaboration with experimental biologists, biomedical scientists, and clinicians and are applied to specific biological problems, both fundamental (e.g. understanding transcriptional and posttranscriptional regulation and cell type definition) and biomedical (e.g. regulatory variant impact in mental health disorders or cancer). Applicants with backgrounds in machine learning/computer science, biomedical informatics, statistics, applied mathematics, and quantitative biology are especially encouraged.

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Application deadline: November 10, 2023
Flatiron Research Fellow, Biophysical Modeling, CCB
Full-time|New York, NY

The Center for Computational Biology (CCB) of the Simons Foundation’s Flatiron Institute is actively seeking enthusiastic, full-time post-doctoral Flatiron Research Fellows to join its Biophysical Modeling Group. The Biophysical Modeling group focuses on the modeling and simulation of complex systems that arise in biology and soft condensed matter physics. Areas of interest include the dynamics of complex and active materials, and aspects of collective behavior and self-organization in both natural systems (e.g., inside the cell) and synthetic ones. Ongoing projects focus on understanding the organization and dynamics of the nucleus, the structure and assembly of spindles, the positioning and transport of cellular organelles, and fluid-structure problems in biology. To address these, often in close collaboration with experimental collaborators, we build numerical and theoretical models from the ground up, revealing how the known mechanics of individual components give rise to collective behavior. Many such phenomena occur only within dense, highly interacting systems, inaccessible to standard techniques. To probe such regimes requires the development of fast and scalable algorithms for many-component systems, and of coarse-grained models that can be analyzed and simulated. Strong applicants with backgrounds in applied and computational mathematics, biophysics, engineering, statistical inference, and related fields are particularly encouraged to apply.

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Application deadline: November 10, 2023
Flatiron Research Fellow, Biological Transport Networks, CCB
Full-time|New York, NY

The Center for Computational Biology (CCB) of the Simons Foundation’s Flatiron Institute is actively seeking enthusiastic, full-time post-doctoral Flatiron Research Fellows to join its new Biological Transport Networks group. The Biophysical Flow and Networks group, headed by Eleni Katifori, focuses on understanding fluid flows in living organisms. Of particular interest is the modeling of vascular networks across multiple scales, including their function, development and remodeling. We employ advanced computational and theoretical techniques, such as large scale flow network simulations, machine learning, and methods from topological data analysis, to a broad set of problems. Examples include modeling vertebrate and invertebrate circulatory systems, quantifying large datasets of the microvasculature, and understanding and incorporating the effects of nonlinearities into networks of vessels. Applicants with interests in complex networks and biofluid dynamics are particularly encouraged to apply.

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Application deadline: November 10, 2023
Flatiron Research Fellows – Software, CCQ
Full-time|New York, NY

The Center for Computational Quantum Physics (CCQ) of the Simons Foundation’s Flatiron Institute, invites applications for multiple Flatiron Research Fellow (click here to apply for that position) and Flatiron Research Fellow-Software postdoctoral positions. The initial appointment is for two years with possible renewal for a third year. Starting dates are flexible, typically between August 2024 and November 2024. Applications will be reviewed beginning in Fall 2023 and considered on a rolling basis until the positions are filled. For full consideration, applying by October 20, 2023 is recommended.

Flatiron Research Fellows-Software are positions for scientists who have recently completed their Ph.D. and whose work is more directly aligned with our software and coding efforts.

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Application deadline: October 20, 2023
Flatiron Research Fellows, CCQ
Full-time|New York, NY

The Center for Computational Quantum Physics (CCQ) of the Simons Foundation’s Flatiron Institute, invites applications for multiple Flatiron Research Fellow and Flatiron Research Fellow-Software (click here to apply for that position) postdoctoral positions. The initial appointment is for two years with possible renewal for a third year. Starting dates are flexible, typically between August 2024 and November 2024. Applications will be reviewed beginning in Fall 2023 and considered on a rolling basis until the positions are filled. For full consideration, application by October 20, 2023 is recommended.

Flatiron Research Fellows are scientists who have recently completed their Ph.D. and plan to work on developing new concepts, algorithms, and codes needed to understand the many-particle quantum problem, and on the physical and chemical properties of systems requiring this new understanding.

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Application deadline: October 20, 2023
Software Engineer, CCA (MESA)
Full-time|New York, NY

The Center for Computational Astrophysics (CCA) at the Flatiron Institute, an internal research division of the Simons Foundation, is seeking a full-time research software engineer to develop, maintain and contribute to the community-oriented software instrument tool MESA (Modules for Experiments in Stellar Astrophysics), and contribute to projects that align with the research directions of the CCA. More information about the CCA can be found on the CCA website. We expect the position to adapt over time to the needs of the broader astronomical community and CCA research community.

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Application deadline: December 1, 2023
Software Engineer, CCA (Astropy)
Full-time|New York, NY

The Center for Computational Astrophysics (CCA) at the Flatiron Institute, an internal research division of the Simons Foundation, is seeking a full-time research software engineer to develop, maintain and contribute to community-oriented software projects in astronomy. The software engineer will principally support the Astropy Project and contribute to projects that align with the research directions of the CCA. More information about the CCA can be found on the CCA website. We expect the position to adapt over time to the needs of the broader astronomical community and CCA research community.

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Application deadline: December 1, 2023
Software Engineer, CCM
Full-time|New York, NY

CCM seeks a full-time software engineer and scientific programmer to help build, improve, and support high-quality, open-source software libraries relating to efforts within the center.  Areas of interest include scientific computing, partial differential equations, neuroscience, imaging, machine learning, statistics, signal processing, fast algorithms, and mathematical libraries. For some of the packages currently under development, see:
https://www.simonsfoundation.org/flatiron/software/?type=40178
 
The Software Engineer will:
• implement, test and optimize mathematical, statistical, and machine-learning algorithms, in languages such as C, C++, Python, MATLAB, and Fortran
• develop interfaces, packages and installers, documentation, user support, and training courses;
• develop user interfaces and collaborate with SCC and other centers within Flatiron and the larger scientific community and
• lead and improve open-source software practices.
 
The software engineer will report to a research scientist at CCM and will join a growing team of developers within CCM and the other centers across Flatiron Institute. The position will be based, and have a principal office, at the Simons Foundation in New York City.

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Application deadline: Rolling
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