KnowSeq R-Bioc package: The automatic smart gene expression tool for retrieving relevant biological knowledge

KnowSeq R/Bioc package is designed as a powerful, scalable and modular software focused on automatizing assembling renowned bioinformatic tools with new features functionalities. It comprises unified environment to perform complex gene expression analyses, covering all the needed processing steps identify signature for specific disease gather understandable knowledge. This process may be initiated from raw files either available at well-known platforms or provided by users themselves, in case coming different information sources Transcriptomic technologies. The pipeline makes use of set advanced algorithms, including adaptation novel procedure selection most representative genes given multiclass problem. Similarly, an intelligent system able classify patients, providing user opportunity choose one among number widespread classification feature methods Bioinformatics, embedded. Furthermore, engineered automatically develop complete detailed HTML report whole which also scalable. Biclass breast cancer lung study cases were addressed rigorously assess usability efficiency KnowSeq. models built using Differential Expressed Genes achieved both experiments reach high rates. biological knowledge was extracted terms Gene Ontologies, Pathways related diseases aim helping expert decision-making process. Bioconductor (https://bioconductor.org/packages/KnowSeq), GitHub (https://github.com/CasedUgr/KnowSeq) Docker (https://hub.docker.com/r/casedugr/knowseq).