The University of Arizona
AGCoL PAVE v3.6
Program for Assembling and Viewing ESTs
AGCoL | PAVE Home | User Guide | Release Notes | View Tour


17-April-2013: PAVE has been renamed to TCW (Transcriptome Computational Workbench) and is available from TCW. It was renamed because it is now a much bigger package including differential expression analysis and transcriptome comparison.

For the lastest release:

Go to TCW


This project is funded in part by National Science Foundation grant IOS-1044821.

PAVE (Program for Assembling and Viewing ESTs) is a software package for assembling, annotating, querying and viewing transcript and expression level data. It was originally written for Sanger ESTs and has been upgraded to support next generation sequencing.

8 Oct 2012 Version 3.6 (see Release Notes for more detail):

  • Manager: this GUI makes it really easy to define the input files and parameters
  • Assembly: (1) assemble read libraries with transcript files, where the transcript files have associated read count files, or (2) load externally generated transcripts and expression data e.g. assembled Illumina contigs
  • Annotation; annotate transcripts from multiple amino acid (e.g. UniProt) or nucleotide databases
  • viewPAVE: query and view alignment of UniProt or Nucleotide hits to a unitran


Download
Documentation
  User Guide
  viewPAVE Tour
  Release Notes
 
The new manager
 
PAVE assembly with Web interface*
  Asian Citrus Psyllid 454
  Asian Citrus Psyllid Sanger
    *The web interface is not part of the Download.
A Java interface (see images on right) is part of the package.
Click an image to view closeup



Reference

C. Soderlund, E. Johnson, M. Bomhoff, and A. Descour. (2009) PAVE: Program for Assembling and Viewing ESTs. BMC Genomics 10:400. Link

NSF Disclaimer

Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.

Email Comments To: pave@agcol.arizona.edu
Last Modified Tuesday April 16, 2013 14:33 PM and 07 seconds