def run(therapy_user, overwrite=False):
from pydream2015.feature.match import match_gex
from pydream2015.feature.match import match_mut
from pydream2015.feature.match import match_dd3dc
from pydream2015.feature.match import match_smoothed_mut_STRING
from pydream2015.feature.match import match_smoothed_CNV
from pydream2015.feature.match import match_smoothed_methyl
from pydream2015.feature.match import match_doseresponsecoef
from pydream2015.feature.match import match_smoothed_drugeffect
match_gex(therapy_user, gexdata, matcheduser_gex, overwrite=overwrite)
match_mut(therapy_user, mutdata, matcheduser_mut, overwrite=overwrite)
match_dd3dc(therapy_user, dd3dc, matcheduser_dd3dc, overwrite=overwrite)
match_smoothed_mut_STRING(therapy_user,
smoothed_mut_STRING,
matcheduser_smoothed_mut,
overwrite=overwrite)
match_smoothed_CNV(therapy_user,
smoothed_CNV_STRING,
matcheduser_smoothed_CNV,
overwrite=overwrite)
match_smoothed_methyl(therapy_user,
smoothed_methyl_STRING,
matcheduser_smoothed_methyl,
overwrite=overwrite)
match_doseresponsecoef(therapy_user,
matcheduser_doseresponsecoef,
overwrite=overwrite)
match_smoothed_drugeffect(therapy_user,
smoothed_drugeffect_STRING,
matcheduser_drugeffect,
overwrite=overwrite)
pass
def test_match_mut(with_small, overwrite):
from pydream2015.feature.match import match_mut
match_mut(therapy, mutdata, matched_mut, overwrite=overwrite)
match_mut(therapy_test, mutdata, matchedtest_mut, overwrite=overwrite)
match_mut(therapy_leader, mutdata, matchedleader_mut, overwrite=overwrite)