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src/o/r/Orange-Bioinformatics-2.5.25/docs/rst/reference/code/genematch2.py   Orange-Bioinformatics(Download)
gmkegg = Orange.bio.gene.GMKEGG("9606")
gmgo = Orange.bio.gene.GMGO("9606")
gmkegggo = Orange.bio.gene.matcher([[gmkegg, gmgo]], direct=False) #joined matchers
 
gmkegg.set_targets(targets)

src/o/r/Orange-Bioinformatics-2.5.25/docs/rst/reference/code/gsea2.py   Orange-Bioinformatics(Download)
data = data.translate([data.domain.attributes[0]], True)
 
matcher = gene.matcher([[gene.GMKEGG("dicty"), gene.GMDicty()]])
genesets =  geneset.collections((("KEGG",), "dicty"))
 

src/o/r/Orange-Bioinformatics-2.5.25/docs/rst/reference/code/gsea_instances.py   Orange-Bioinformatics(Download)
data = gds.getdata(transpose=True) 
 
matcher = gene.matcher([gene.GMKEGG("Homo sapiens")])
genesets = geneset.collections((("KEGG",), "Homo sapiens"))
 

src/o/r/Orange-Bioinformatics-2.5.25/docs/rst/reference/code/gsea_genes.py   Orange-Bioinformatics(Download)
data = gds.getdata() 
 
matcher = gene.matcher([gene.GMKEGG("Homo sapiens")])
genesets = geneset.collections((("KEGG",), "Homo sapiens"))
 

src/o/r/Orange-Bioinformatics-2.5.25/docs/rst/reference/code/gsea1.py   Orange-Bioinformatics(Download)
    ]))
 
res = Orange.bio.gsea.run(data, gene_sets=gen1, matcher=Orange.bio.gene.matcher([]), min_size=2)
print "%5s  %6s %6s %s" % ("LABEL", "NES", "P-VAL", "GENES")
for gs,resu in res.items():