Package org.biojava.bio.program.blast2html


package org.biojava.bio.program.blast2html
Code for generating HTML reports from blast output
  • Class
    Description
    Abstract implementation of AlignmentStyler, contains utility methods for generating a set of HTML styles from a list of RGB colours.
    Class to do simple HTML colouring of sequence alignments.
    Takes a SAX event stream and a HTMLRenderer to produce a HTML Blast like program report.
    Interface for specifying whether a particular pair of residues/bases should be coloured.
    Takes a database ID and some configuration properties ( such as base URL ) and returns either a URL or a full anchor tag.
    A simple default URLGeneratorFactory which returns a single NcbiDatabaseURLGenerator instance.
    Simple URL generator for EMBL at the EBI.
    Renders HTML version of blast-like output.
    Simple URL generator for Entrez at the NCBI.
    Simple implementation for specifying markup styles.
    Interface for a factory method to return a list of 0, 1 or more DatabaseURLGenerator instances.