AutoSPOTs – Batch Analysis of JPEG images for Fluorescent Spots

AutoSPOTs

:: DESCRIPTION

AutoSPOTs is a Graphical User Interface for the automated batch analysis of JPEG images for fluorescent spots.

::DEVELOPER

the Chang Lab, Oregon State University,

:: SCREENSHOTS

AutoSPOTs

:: REQUIREMENTS

  • Linux/ MacOsX/ Windows
  • Perl
  • TK

:: DOWNLOAD

AutoSPOTs

:: MORE INFORMATION

Citation

J. S. Cumbie, R. C. Pankow, W. J. Thomas, and J. H. Chang (2010)
AutoSPOTs: Automated Image Analysis for Enumerating Callose Deposition
10th Japan-US Seminar: Genome-Enabled Integration of Research in Plant Pathogen Systems, K. Akimitsu, et al., Editors. 2010, APS press: St. Paul, MN.

eBAS 3.6 – eMOTIF Batch Analysis Suite

eBAS 3.6

:: DESCRIPTION

eBAS (eMOTIF Batch Analysis Suite permits eMOTIF licensees to analyze groups of proteins or entire proteomes for the presence of eMOTIFs in batch fashion.The core of this software bundle is a Makefile script that has streamlined and automated the steps involved in running the database of eMOTIFS against multiple ORFs, genomes, and proteomes. ebas accepts FASTA-formatted ORF sequences, FASTA-formatted genomic DNA sequences, and FASTA-formatted protein sequences as input. eBAS assumes the ORFs are reported in the right frame; therefore, ebas will only translate one frame of the ORF sequences. Genomic DNA sequences, on the other hand, may or may not code for proteins; ebas, therefore, will translate all six frames of the genomic DNA sequences. The input protein and translated sequences are then piped to eMOTIF-SEARCH for automated classification. ebas has been applied to coding sequences derived from the Arabidopsis thaliana genomic sequence.

::DEVELOPER

 The Brutlag Bioinformatics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Mac OsX
  • C Complier
  • EMOTIF

:: DOWNLOAD

   eBAS

:: MORE INFORMATION

Citation:

Huang, J. Y. and Brutlag, D. L. (2001).
The eMOTIF Database.
Nucleic Acids Research, 29(1), 202-204.

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