Examples of MotifToLandscape

Examples of fork.lib.bio.seq.align.MotifToLandscape

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    while( (en=zz.nextEntry())!=null ){
        String nm= en.tit;
        PWM mot= en.pwm;
       
        FastaReader fr= new FastaReader(new File(dir+"/anno/genomes/sacCer1/sacCer1.fa"));
        MotifToLandscape ml= new MotifToLandscape(fr, mot);
       
        System.out.println(nm+"  ");
        File of= new File(od+"/"+nm+".wig");
        ml.writeToFile(of, nm);
        fr.close();
       
           
        /*
        String s= "AGATTATTTAATAATGGGAC";
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Examples of fork.lib.bio.seq.align.MotifToLandscape

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                tab.setValueAt(v, row, col);
            }
        }
        FastaReader fr= new FastaReader(new File(dir+"/anno/genomes/sacCer1/sacCer1.fa"));
        PWM mot= new PWM(tab);
        MotifToLandscape ml= new MotifToLandscape(fr, mot);

        System.out.println(nm+"  ");
       
        File of= new File(od+"/"+nm+".wig");
        ml.writeToFile(of, nm);
        fr.close();
       
        //System.exit(1);
    }
   
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