easyMF is a flexible and easy-to-use framework that can facilitate gene discovery from large-scale transcriptome data using matrix factorization (MF) algorithms.
easyMF comprises three functional modules, named Matrix Preparation, Matrix Factorization, and Deep Mining. The Matrix Preparation module can perform matrix generation from raw RNA-Seq reads; the Matrix Factorization module can perform decompose high-dimensional gene expression matrix into low-dimensional matrices (e.g., the amplitude matrix [AM] and the pattern matrix [PM]); the Deep Mining module can perform gene discovery from AM and PM.
easyMF is equipped with the Galaxy system, allowing users to perform accessible, reproducible, collaborative and transparent analyses of large-scale transcriptome data.
easyMF is also powered with an advanced packaging technology, which enables compatibility and portability.
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