Description Features Screenshots Download Author: James C. Estill

Description

The DNA Sequence Database And Blast Builder (DNA DABBLER) program is Microsoft Access based application suitable for managing DNA sequence data for small to medium sized sequencing operations. DNA DABBLER is suitable for storing data for up to a few hundred thousand sequences, while the MyGCAT package is best for larger sequence databases. DNA DABBLER is interfaced via a set of graphical user interfaces making it suitable for novices in bioinformatics. It serves as a great transition for people learning to do standalone BLAST, and provides a an interface for managing data associated with sequencing projects.

Features

Fully implemented features:

• Tracking of all sequence data by plate, well address and quality
• Quality control evaluation of sequencing runs via tracking of sequence quality derived from sequencing columns over time
• Tracking data associated with sequence reads that are needed for upload to GenBank including project, PI, and publication.
• Linking to trace gzipped archives of trace files viewable via the Chromas program
• Graphical User Interface to NCBI standalone BLAST including design of a BLAST query and evaluation of BLAST results
• Data conversion between UNIX and DOS formatted text files to allow for parsing of text files derived from BLAST on *NIX systems
• Automated import of FASTA formatted text files to allow for quick evaluation and import of data downloaded from NCBI
• Automated export of FASTA formatted text files from sequence files stored within the database

Future directions:

• Batch upload of sequence data to GenBank
• Formatting NCBI BLAST databases

Screenshots

DNA DABBLER Startup Form

The startup form provides links to all of the forms and tools available.

Projects

All data associated with the project may be track by the project form. This includes all sequence reads associated with the project, publications results from the project, contact information and plates.

Plate

The data associated with each plate.

Big Dawg BLAST

The most advanced option in the DNA DABBLER program is the Big Dawg Blast program which provides a Graphical User Interface to NCBI-BLAST. The user can select the database that they are interested in BLASTing against, the BLAST Program that they are interested in using, as well as basic BLAST options. More advanced BLAST options can be set by clicking on the Advanced Options tab. The BLAST job may be run on the local machine, or the BLAST command may be copied and pasted to BLAST on a different computer.

Big Dawg BLAST Advanced Options

All of the advanced options available from the BLAST program are available from the Advanced Options tab.

BLAST Output Report

The text file from the BLAST output may be parsed and viewed from within the program. The user may open BLAST output produced by DNA DABBLER or BLAST files produced from external BLAST programs.

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