vampsarchive.mbl.edu

VAMPS - Home

Revised: July 30th, 2009. The Visualization and Analysis. Of Microbial Population Structures. VAMPS is an integrated collection of tools for researchers to visualize and analyze data for microbial population structures and distributions. For more information on the VAMPS project, visit our VAMPS Overview. There are two essential elements to VAMPS:. Please see our Recent Updates. Page for more information. VAMPS is a project of the Josephine Bay Paul Center in Comparative Molecular Biology and Evolution.

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Revised: July 30th, 2009. The Visualization and Analysis. Of Microbial Population Structures. VAMPS is an integrated collection of tools for researchers to visualize and analyze data for microbial population structures and distributions. For more information on the VAMPS project, visit our VAMPS Overview. There are two essential elements to VAMPS:. Please see our Recent Updates. Page for more information. VAMPS is a project of the Josephine Bay Paul Center in Comparative Molecular Biology and Evolution.

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2 vamps archive home

3 vamps home

4 visualization and analysis

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6 data exporter

7 taxonomic counts

8 trimmed fasta sequences

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VAMPS - Home | vampsarchive.mbl.edu Reviews

https://vampsarchive.mbl.edu

Revised: July 30th, 2009. The Visualization and Analysis. Of Microbial Population Structures. VAMPS is an integrated collection of tools for researchers to visualize and analyze data for microbial population structures and distributions. For more information on the VAMPS project, visit our VAMPS Overview. There are two essential elements to VAMPS:. Please see our Recent Updates. Page for more information. VAMPS is a project of the Josephine Bay Paul Center in Comparative Molecular Biology and Evolution.

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vampsarchive.mbl.edu

1

VAMPS - Publications

http://vampsarchive.mbl.edu/resources/pubs.php

The following is a list of publications that may be of interest for anyone wishing to perform similar data analysis:. Huse, S.M., L. Dethlefsen, J.A. Huber, D. Mark Welch, D.A. Relman, M.L. Sogin (2008). Exploring microbial diversity and taxonomy using SSU rRNA hypervariable tag sequencing. PLoS Genetics.4(11): e1000255 doi:10.1371/journal.pgen.1000255. PLoS ONE 2(2): e197. Edgar RC (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32(5): 1792-1797.

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VAMPS - Overview

http://vampsarchive.mbl.edu/overview.php

Overview of the VAMPS Project. The Visualization and Analysis of Microbial Population Structure. VAMPS is a project of the Josephine Bay Paul Center in Comparative Molecular Biology and Evolution. Of the Marine Biological Laboratory. In Woods Hole, MA. The project is under the direction of Mitchell Sogin. And is funded through the Alfred P. Sloan Foundation. Supported by Alfred P. Sloan Foundation. And the Josephine Bay Paul and C. Michael Paul Foundation.

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VAMPS - Login Page

http://vampsarchive.mbl.edu/vamps

If you do not have a login and would like to view the existing public data only,. You may login as user. If you do not have a login, and would like to upload data and use the visualization tools with your own data, you may request a user account. User account requests are not automated and may take one or two business days to process. Supported by Alfred P. Sloan Foundation. And the Josephine Bay Paul and C. Michael Paul Foundation. Unless otherwise stated, all material 2009 Bay Paul Center, MBL.

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VAMPS - Software

http://vampsarchive.mbl.edu/resources/software.php

A graphical program for 16S rRNA alignments, and, with SILVA, the source of our reference set of aligned full-length rRNA sequences, RefSSU. A bioinformatics package which includes functions from DOTUR, SONS, TreeClimber, S-Libshuff and Unifrac. MOTHUR provides OTU clustering capabilities as well as diversity and rarefaction calculations used by VAMPS. Multiple Sequence Comparison by Log-expectation - a multiple sequence aligner optimized for extremely large datasets.

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VAMPS - Recent Updates

http://vampsarchive.mbl.edu/resources/updates.php

July 30th, 2009. A taxonomy file (*.tax) has been added to the OTU Cluster files. The taxonomy file shows the taxonomy corresponding to the reads in the *.list file for the 0.03, 0.06, and 0.10 widths. April 2nd, 2009. The ability to export data for selected domains was added to the Export Taxcounts page. The user can now select Archaea, Bacteria, Eukarya, or Organelle sequences for download, as well as all domains together. March 12th, 2009. March 9th, 2009. March 9th, 2009. February 13th, 2009. The abi...

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VAMPS - Home

Revised: July 30th, 2009. The Visualization and Analysis. Of Microbial Population Structures. VAMPS is an integrated collection of tools for researchers to visualize and analyze data for microbial population structures and distributions. For more information on the VAMPS project, visit our VAMPS Overview. There are two essential elements to VAMPS:. Please see our Recent Updates. Page for more information. VAMPS is a project of the Josephine Bay Paul Center in Comparative Molecular Biology and Evolution.

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