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PcPipe is a pipeline that implements a series of steps for protein clustering and annotation. 1: User defined proteins are clustered with proteins from known protein clusters. 2: Proteins that do not cluster are self-clustered to form novel protein clusters. 3: Proteins from novel self-clusters are compared to a reference set of proteins from the Similarity Matrix of Proteins (SIMAP). 4: Annotations from SIMAP proteins are assigned to each hit from the novel protein clusters.
Description and Quick Start
Protein clusteringTest Data
Protein clustering.Parameters Used in App
ORFs and existing protein clusters.Output File(s)
BLAST results annotated with SIMAP features.
Protocol for use is here: https://www.protocols.io/view/PCPipe-Protein-clustering-with-SIMAP-annotations-ehfbb3n