Examples of initRows()

Examples of data.cerevisiae.inhouse.jointable.JoinTable.initRows()

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    File d= new File(dir+"/other_datasets/harbison_2004");
   
    File f= new File(d+"/pvalbygene_forpaper_abbr.txt");
   
    JoinTable jj= new JoinTable();
    jj.initRows( new File(dir+"/anno/xu_2009_orfs.bed") );
   
   
    jj.addTextFileChunk(f);
   
    jj.writeToFile(new File(d+"/combine.txt"));
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Examples of data.cerevisiae.inhouse.jointable.JoinTable.initRows()

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    File dir= Dirs.getFile("dir");
    File ref= new File(dir+"/anno/xu_2009_orfs.bed");
    File d= new File(dir+"/other_datasets\\liu_2005_hist-mods\\data\\wig\\score");
   
    JoinTable jj= new JoinTable();
    jj.initRows(ref);
   
    File[] fs= d.listFiles();
    Arrays.sort(fs);
    for( int i=0; i<fs.length; i++ ){
        File f= fs[i];
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Examples of data.cerevisiae.inhouse.jointable.JoinTable.initRows()

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    JoinTable jj= new JoinTable();
   
   
    jj.initRows(ref);
    jj.addNameBedFile(nf);
   
    File wd= new File(dir+"/other_datasets\\lenstra_2011\\GSE25909_RAW\\idmap\\norm\\plot/");
    File inf= new File(wd+"/combine_raw.txt");
    ReadTable rt= new ReadTable(inf);
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Examples of data.cerevisiae.inhouse.jointable.JoinTable.initRows()

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    File dir= Dirs.getFile("dir");
    File ref= new File(dir+"/anno/xu_2009_orfs.bed");
    File d= new File(dir+"/other_datasets\\ranjan2013_swr1-chip\\score");
   
    JoinTable jj= new JoinTable();
    jj.initRows(ref);
   
   
    jj.addBedFile(new File(d+"/swr1-chip_wt/swr1-chip_wt_sacCer1-xu_gene_five_0.150.bed"));
    jj.addBedFile(new File(d+"/swr1-chip_wt/swr1-chip_wt_sacCer1-xu_gene_three_150.0.bed"));
    jj.addBedFile(new File(d+"/swr1-chip_htz1d/swr1-chip_htz1d_sacCer1-xu_gene_five_0.150.bed"));
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Examples of data.cerevisiae.inhouse.jointable.JoinTable.initRows()

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    File ref= new File(refd+"/ercc-rna_spike-in.bed");
   
   
    JoinTable jj= new JoinTable();
   
    jj.initRows(ref);
   
   
    ReadTable rt= new ReadTable(new File(refd+"/anno_ercc-rna_spike-in.txt"));
    rt.param().setSkipRows(0);
    jj.addHashMapIDToVal(rt.getHashMap(1, 3), "conc");
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Examples of data.cerevisiae.inhouse.jointable.JoinTable.initRows()

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    File d= new File(dir+"/data/chip-seq\\norm\\score\\sacCer1-xu\\219-swr1d_r1");
   
    JoinTable jj= new JoinTable();
   
   
    jj.initRows(ref);
    jj.addNameBedFile(nf);
   
    File wd= new File(dir+"/other_datasets/inhouse/swr1d");
    wd.mkdirs();
   
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Examples of data.human.test.trsc.CombineRNA.initRows()

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    for( int i=0; i<tms.length; i++ ){
        File f= new File(rd+"/side-right_200_5_locate_ensGene_hg19_exon_mcf7_rna3_time-"+tms[i]+"_hg19.bed");
        if(FileName.getExt(f).equals("bed")){
            if(!ifinit){
                jj.initRows(f);
                ifinit=true;
            }
            jj.addBedFile(f);
        }
   
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Examples of data.human.test.trsc.CombineRNA.initRows()

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    for( int i=0; i<tms.length; i++ ){
        File f= new File(cd+"/chip_norm_wig_mcf7_chip-h2az_time-"+tms[i]+"_hg19.bed");
        if(FileName.getExt(f).equals("bed")){
            if(!ifinit){
                jj.initRows(f);
                ifinit=true;
            }
            jj.addBedFile(f);
        }
    }
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