Tag: BLAST

annot8r 1.1.1 – BLAST based GO-EC-KEGG Annotation

annot8r 1.1.1

:: DESCRIPTION

annot8r is a tool for the annotation of protein or nucleotide sequences from non model organisms with GO terms, EC numbers and KEGG pathways. The annotation is based on BLAST similarity searches against annotated subsets of EMBL UniProt from which sequences with non-informative entries have been removed. GO, EC and KEGG annotations are saved as flat files and in a relational postgreSQL database to allow for more sophisticated searches within the results.

::DEVELOPER

Ralf Schmid and Mark Blaxter

:: REQUIREMENTS

:: DOWNLOAD

annot8r

:: MORE INFORMATION

CLOBB 2.0 – Cluster Sequences on the Basis of BLAST

CLOBB 2.0

:: DESCRIPTION

CLOBB (Cluster on the basis of BLAST similarity) takes a set of DNA sequences and clusters them into groups which putatively derive from the same gene. In order to operate, the user must have BLASTALL in their path. The output is a blastable fasta file named <cluster_id>EST, where cluster_id is given by the user, which contails a list of sequences with identifiers <cluster_id>00001 to <cluster_id>99999.

::DEVELOPER

John Parkinson (john.parkinson@ed.ac.uk) and Mark Blaxter , Institute of Cell, Animal and Population Biology, University of Edinburgh

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

CLOBB

:: MORE INFORMATION

Citation:

John Parkinson , David B Guiliano and Mark Blaxter
Making sense of EST sequences by CLOBBing them
BMC Bioinformatics 2002, 3:31

blastGraphic 0.02 – BLAST Graphic Viewer

blastGraphic 0.02

:: DESCRIPTION

blastGraphic (BLAST Graphic Viewer)  provides a graphical visualization of the regions contained within HSPs relative to the query sequence.This graphic module will support BLASTN, BLASTP, BLASTX, TBLASTX,    TBLASTN, BLAT, and TBLATN. For the databases, it will support any fasta-   formated datasets (i.e., nr, nt, etc).

::DEVELOPER

Shuai Weng & SGD team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

blastGraphic

:: MORE INFORMATION

blastGraphic is a free software. You can use it under the same terms as Perlitself.