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arXiv · 2511.16923

A Hybrid Computational Intelligence Framework for scRNA-seq Imputation: Integrating scRecover and Random Forests

Ali Anaissi·Deshao Liu·Yuanzhe Jia·Weidong Huang·Widad Alyassine·Junaid Akram
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Abstract

Single-cell RNA sequencing (scRNA-seq) enables transcriptomic profiling at cellular resolution but suffers from pervasive dropout events that obscure biological signals. We present SCR-MF, a modular two-stage workflow that combines principled dropout detection using scRecover with robust non-parametric imputation via missForest. Across public and simulated datasets, SCR-MF achieves robust and interpretable performance comparable to or exceeding existing imputation methods in most cases, while preserving biological fidelity and transparency. Runtime analysis demonstrates that SCR-MF provides a competitive balance between accuracy and computational efficiency, making it suitable for mid-scale single-cell datasets.

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Ali Anaissi, Deshao Liu, Yuanzhe Jia, Weidong Huang, Widad Alyassine, Junaid Akram. 2025-11-21. A Hybrid Computational Intelligence Framework for scRNA-seq Imputation: Integrating scRecover and Random Forests. https://arxiv.org/abs/2511.16923

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