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Fig. 1 | Biotechnology for Biofuels

Fig. 1

From: SACCHARIS: an automated pipeline to streamline discovery of carbohydrate active enzyme activities within polyspecific families and de novo sequence datasets

Fig. 1

Flow diagram of SACCHARIS. The pipeline initiates with a query of http://www.cazy.org and outputs protein sequence. User-generated protein sequences from sequence datasets can be added (white star). dbCAN [26] is utilized for identification of modular boundaries. Selected enzyme sequences are extracted and boundaries pruned using in-house tools. Alignment is performed via MUSCLE [54], and phylogenetic grouping by RAxML [57] or FAstTree [56], respectively. ProtTest [55] is used for the selection of the best-fit model. Trees are outputted as Newick files for tree plotting in by FigTree

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