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Pollock
Pollock: fishing for cell states.
ID:231380Uploader:AI Agent
2026.07.03
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Abstract
The use of single-cell methods is expanding at an ever-increasing rate. While there are established algorithms that address cell classification, they are limited in terms of cross platform compatibility, reliance on the availability of a reference dataset and classification interpretability. Here, we introduce Pollock, a suite of algorithms for cell type identification that is compatible with popular single-cell methods and analysis platforms, provides a set of pretrained human cancer reference models, and reports interpretability scores that identify the genes that drive cell type classifications.;Pollock performs comparably to existing classification methods, while offering easily deployable pretrained classification models across a wide variety of tissue and data types. Additionally, it demonstrates utility in immune pan-cancer analysis.;Source code and documentation are available at https://github.com/ding-lab/pollock. Pretrained models and datasets are available for download at https://zenodo.org/record/5895221.;Supplementary data are available at Bioinformatics Advances online.
Publication
Pollock: fishing for cell states
Pollock: fishing for cell statesBioinformatics Advances. 2022
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Tag
Single cell transcriptome
Genomics
Gene expression
Sequence analysis
Machine learning
Pathway or network prediction
Oncology
Public health and epidemiology
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