def RunQC(verbose= False, sample_level=False, remove_samples=False, variant_level=False, client_secrets=None, project_number=None,
dataset=None, variant_table=None, expanded_table=None, poll=False):
qc = GenomicsQC(verbose=verbose, client_secrets=client_secrets, project_number=project_number, dataset=dataset,
variant_table=variant_table, expanded_table=expanded_table)
if sample_level is True:
qc.sample_qc(remove=remove_samples)
if variant_level is True:
qc.variant_qc(poll)
def RunQC(verbose=False,
sample_id=None,
sample_file=None,
variant_file=None,
client_secrets=None,
project_number=None,
dataset=None,
variant_table=None,
expanded_table=None):
qc = GenomicsQC(verbose=verbose,
client_secrets=client_secrets,
project_number=project_number,
dataset=dataset,
variant_table=variant_table,
expanded_table=expanded_table)
if sample_id is not None:
qc.remove_sample(sample_id)
if sample_file is not None:
qc.remove_samples_from_file(sample_file)
if variant_file is not None:
qc.remove_positions_from_file(variant_file)
def RunQC(verbose=False,
sample_level=False,
remove_samples=False,
variant_level=False,
client_secrets=None,
project_number=None,
dataset=None,
variant_table=None,
expanded_table=None,
poll=False,
qc_step=None):
qc = GenomicsQC(verbose=verbose,
client_secrets=client_secrets,
project_number=project_number,
dataset=dataset,
variant_table=variant_table,
expanded_table=expanded_table)
if sample_level is True:
qc.sample_qc(remove=remove_samples)
if variant_level is True:
qc.variant_qc(poll)
if qc_step is not None:
qc.custom_list(qc_step)
def RunQC(verbose= False, sample_id=None, sample_file=None, variant_file=None, client_secrets=None,
project_number=None, dataset=None, variant_table=None, expanded_table=None):
qc = GenomicsQC(verbose=verbose, client_secrets=client_secrets, project_number=project_number, dataset=dataset,
variant_table=variant_table, expanded_table=expanded_table)
if sample_id is not None:
qc.remove_sample(sample_id)
if sample_file is not None:
qc.remove_samples_from_file(sample_file)
if variant_file is not None:
qc.remove_positions_from_file(variant_file)
