org.biojava.bio.program.blast2html (BioJava-1.5-beta API)
Keywords: org.biojava.bio.program.blast2html package

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## Package org.biojava.bio.program.blast2html

Code for generating HTML reports from blast output

See:
Description

Interface Summary
ColourCommand | Interface for specifying whether a particular pair of residues/bases should be coloured.
DatabaseURLGenerator | Takes a database ID and some configuration properties ( such as base URL ) and returns either a URL or a full anchor tag.
URLGeneratorFactory | Interface for a factory method to return a list of 0, 1 or more `DatabaseURLGenerator` instances.

Class Summary
AbstractAlignmentStyler | Abstract implementation of `AlignmentStyler`, contains utility methods for generating a set of HTML styles from a list of RGB colours.
AlignmentMarker | Class to do simple HTML colouring of sequence alignments.
Blast2HTMLHandler | Takes a SAX event stream and a HTMLRenderer to produce a HTML Blast like program report.
DefaultURLGeneratorFactory | A simple default `URLGeneratorFactory` which returns a single `NcbiDatabaseURLGenerator` instance.
EbiDatabaseURLGenerator | Simple URL generator for EMBL at the EBI.
HTMLRenderer | Renders HTML version of blast-like output.
NcbiDatabaseURLGenerator | Simple URL generator for Entrez at the NCBI.
SimpleAlignmentStyler | Simple implementation for specifying markup styles.

## Package org.biojava.bio.program.blast2html Description

Code for generating HTML reports from blast output

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