Research

My research focuses on developing statistical and computational methods for complex scientific problems, with emphasis on uncertainty quantification, calibration, and scalable inference.

Calibration and UQ

Bayesian methods Gaussian process Stochastic simulation

Developing scalable methods for calibrating complex epidemiologic models and quantifying prediction uncertainty. This work combines Gaussian processes, Bayesian inference, and high-performance computing to enable efficient exploration of parameter spaces.

Related Publications
Adaptive Grid-Based Thompson Sampling paper
Adaptive Grid-Based Thompson Sampling for Efficient Trajectory Discovery

Authors: Fadikar, A., Stevens, A., Binois, M., Collier, N., Ozik, J.

arXiv preprint, 2025

Gearing Gaussian process modeling paper
Gearing Gaussian process modeling and sequential design towards stochastic simulators

Authors: Binois, M., Fadikar, A., Stevens, A.

arXiv preprint, 2024

Towards improved uncertainty quantification paper
Towards Improved Uncertainty Quantification of Stochastic Epidemic Models Using Sequential Monte Carlo

Authors: Fadikar, A., Stevens, A., Collier, N., et al.

IEEE IPDPSW, 2024

Trajectory-oriented optimization paper
Trajectory-Oriented Optimization of Stochastic Epidemiological Models

Authors: Fadikar, A., Collier, N., Stevens, A., Ozik, J., et al.

Winter Simulation Conference (WSC), 2023

Quantile-based emulation paper
Calibrating a Stochastic, Agent-Based Model Using Quantile-Based Emulation

Authors: Fadikar, A., Higdon, D., Chen, J., Lewis, B., Venkatramanan, S., Marathe, M.

SIAM/ASA Journal on Uncertainty Quantification, 2018


Biostatistics

Biostatistics Epigenomics RNA-Seq

Statistical methods for high-dimensional omics data, including region-based DNA methylation analysis and robust differential expression inference under heteroscedasticity. This work emphasizes reproducibility, error control, and biologically meaningful discovery.

Related Publications
ReMeDy paper
ReMeDy: A Flexible Statistical Framework For Region-based Detection of DNA Methylation Dysregulation

Authors: Chatterjee, S., Meshram, S., Arunkumar, G., Tekola-Ayele, F., Fadikar, A.

bioRxiv preprint, 2026

SACOMA paper
A spatially-aware unsupervised pipeline to identify co-methylation regions in DNA methylation data

Authors: Meshram, S., Fadikar, A., Arunkumar, G., Chatterjee, S.

bioRxiv preprint, 2025

Robseq paper
Group Heteroscedasticity - A Silent Saboteur of Power and False Discovery in RNA-Seq Differential Expression

Authors: Chatterjee, S., Fadikar, A., Hanumesh, V., et al.

bioRxiv preprint, 2024


Workflows

HPC Workflow Systems Epidemic Modeling

Building scalable workflow infrastructures for distributed model exploration, robust epidemic analysis, and reproducible scientific computing on heterogeneous high-performance platforms.

Related Publications
AERO paper
Automation and Collaboration in Complex Epidemiological Workflows with OSPREY

Authors: Ozik, J., Collier, N., Fadikar, A., Wozniak, J., et al.

ICPP Workshops, 2025

EMEWS paper
Distributed Model Exploration with EMEWS

Authors: Collier, N., Wozniak, J. M., Fadikar, A., Stevens, A., Ozik, J.

Winter Simulation Conference (WSC), 2024

OSPREY platform paper
Developing Distributed High-performance Computing Capabilities of an Open Science Platform for Robust Epidemic Analysis

Authors: Collier, N., Wozniak, J. M., Stevens, A., Babuji, Y., Binois, M., Fadikar, A., et al.

IEEE IPDPSW, 2023