PcPipe 1.0.0 

Community rating: ?????

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.

Quick Start

• PCPipe

  Description and Quick Start

  Protein clustering

  Test Data

  /iplant/home/shared/imicrobe/pcpipe

  Input File(s)

  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

• https://github.com/hurwitzlab/pcpipe
• http://www.nature.com/ismej/journal/vaop/ncurrent/full/ismej201689a.html?WT.feed_name=subjects_genetics