MOTIVATION: Single-cell technologies enable high-resolution cellular studies but face challenges in identifying differential features due to data complexity. RESULTS: We present OTMODE, a non-parametric method using unbalanced Sinkhorn algorithm and Wald test to improve differential feature identification in single-cell multi-omics data. Under simulation, OTMODE achieved superior performance (average 90% F1 score; average 92% AUC score) with high efficiency (2.2 s for 5000 cells). In practice, it shows greater sensitivity than other state-of-the-art methods in detecting meaningful processes and can evaluate annotation accuracy by identifying potentially misannotated clusters from auto-annotation tools. Furthermore, OTMODE integrates seamlessly with Scanpy, offering a user-friendly solution for researchers. AVAILABILITY AND IMPLEMENTATION: OTMODE is freely available at https://github.com/Eggong/OTMODE and also available at https://pypi.org/project/OTMODE/.

Process discovery techniques analyze process logs to extract models that characterize the behavior of business processes. In real-life logs, however, noises exist and adversely affect the extraction and thus decrease the understandability of discovered models. In this paper, we propose a novel double granularity filtering method, executed on both the event and trace levels, to detect noises by analyzing the directly-following and parallel relations between events. Based on the probability of an event occurring in a sequence, the infrequent behaviors and redundant events in the logs can be filtered out. In addition, the missing events in parallel blocks are detected to further improve the performance of filtering. Experiments on synthetic logs and five real-life datasets demonstrate that our method significantly outperforms other state-of-the-art methods.