surfaltr

surfaltr is an R package to address the need for bioinformatic tools in rapidly benchmarking large numbers of isoforms identified from multiomic approaches, mainly focusing on cell surface proteins. These proteins constitute a significant portion of the druggable proteome and play a crucial role in tissue-specific delivery of therapeutics. Alternative splicing regulates surface protein isoforms, influencing subcellular localization and transmembrane topology and contributing to cell type-specific signatures.
The surfaltr package takes user-input isoforms, associates them with known principal isoforms of the gene, predicts transmembrane topologies, and generates customizable graphical outputs. Additionally, it prioritizes topologically diverse isoform pairs through three different ranking metrics and incorporates protein alignment functions.