XpBrew and PanXpresso - automatic RNA-seq processing workflow and comprehensive collection of gene expression data
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Rapid developments in sequencing technologies have reduced the costs of transcriptomic experiments and resulted in a plethora of publicly available RNA-seq datasets. This is a valuable resource that can be harnessed to obtain novel biological insights through data upcycling. In this wake, we introduce XpBrew, an end-to-end Python workflow that was applied to generate PanXpresso, a comprehensive collection of gene expression datasets covering the taxonomic breadth of plants, animals, fungi, bacteria and archaea. XpBrew ( https://github.com/PuckerLab/XpBrew ) and PanXpresso ( https://doi.org/10.60507/FK2/OBIGQH ) are freely available.
