Sequence Search

Armbrust Cluster BLAST Interface

This interface provides web 2.0 access to using NCBI's BLAST executable on the Armbrust Lab's 256 CPU Linux cluster in highly parallel fashion

Features

• Recent & Shared Jobs Lists & Statuses
• Tabular Output
• Email Notification
• Database & Query Fasta Provenience Informational links
• Reciprocal Blasting
• Colorful graphical output for Evalue Distributions, Hit/Miss Breakdown, & Alignments
• Residue Level Single Alignment Text Output (BLAST)
• Residue Level Multiple Alignment Text Output (ClustalW)

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Genome Browsers

Anno-J

"Anno-J is a Web 2.0 application designed for visualizing deep sequencing data and other genome annotation data. It is intended to run in modern W3C compliant browsers*, and allows flexible configuration of plugins and data streams from providers located anywhere on the internet." http://www.annoj.org/

Armbrust Lab Anno-J Instances Actively Maintained Version Author Dave Schruth Last Modified October 2009 Link armbrustlab.ocean..../annoj/ Deprecated Versions Public Author Vaughn Iverson Last Modified August 2008 Link acgt.ocean.../annoj/tp_pub.html Private Author Vaughn Iverson Last Modified August 2008 Link acgt.ocean.../~vsi/thaps.html

Metagenomics

coming soon

Metatranscriptomics

SeaFlow Cytometer

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Authors  Francois Ribalet, Chris D. Fox, David Schruth, Jarred Swalwell

Version 1.0 Updated November 2009

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Metadata Database

Django Admin Portal to the Meta-Database

This interface provides web 2.0 access to the manually entered and managed tables in our lab database. These areas range from bioinformatics Pipelines, Blast runs, & Anno-J tracks to SOLiD runs and lab experiments & publications.
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