swMATH ID: 24532
Software Authors: Wang, J.; Yang, B.; Revote, J.; Leier, A.; Marquez-Lago, T.T.; Web.; Lithgow, T.
Description: POSSUM: a bioinformatics toolkit for generating numerical sequence feature descriptors based on PSSM profiles. Evolutionary information in the form of a Position-Specific Scoring Matrix (PSSM) is a widely used and highly informative representation of protein sequences. Accordingly, PSSM-based feature descriptors have been successfully applied to improve the performance of various predictors of protein attributes. Even though a number of algorithms have been proposed in previous studies, there is currently no universal web server or toolkit available for generating this wide variety of descriptors. Here, we present POSSUM ( Po sition- S pecific S coring matrix-based feat u re generator for m achine learning), a versatile toolkit with an online web server that can generate 21 types of PSSM-based feature descriptors, thereby addressing a crucial need for bioinformaticians and computational biologists. We envisage that this comprehensive toolkit will be widely used as a powerful tool to facilitate feature extraction, selection, and benchmarking of machine learning-based models, thereby contributing to a more effective analysis and modeling pipeline for bioinformatics research. Availability and implementation: http://possum.erc.monash.edu/ .
Homepage: http://possum.erc.monash.edu/help.jsp
Related Software: 2L-piRNA; iRSpot-EL; iRNA-PseColl; pLoc-mAnimal; PseKNC; Pse-in-One; pLoc-mPlant; iPreny-PseAAC; iRNAm5C-PseDNC; iATC-mHyb; pLoc-mEuk; pLoc-mVirus; iRNA-AI; iPTM-mLys; pLoc-mHum; iProt-Sub; pLoc-mGneg; iPromoter-2L; iRSpot-PseDNC; iSuc-PseOpt
Referenced in: 8 Publications

Referenced in 1 Serial

8 Journal of Theoretical Biology

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