Python make_CanSNPer_testsuite Examples

Example #1

File: yersinia_pestis.py Project: kvarq/kvarq-CanSNPer

from _CanSNPer import make_CanSNPer_testsuite, VERSION, GENES_COMPATIBILITY

yersinia_pestis = make_CanSNPer_testsuite(
        VERSION,
        dict(CO92='CO92.fa'),
        'yersinia_pestis_snp.txt',
        'yersinia_pestis_tree.txt'
    )

Example #2

File: francisella_tularensis.py Project: kvarq/kvarq-CanSNPer

from _CanSNPer import make_CanSNPer_testsuite, VERSION, GENES_COMPATIBILITY

francisella_tularensis = make_CanSNPer_testsuite(
        VERSION,
        {
            'OSU18': 'OSU18.fa',
            'SCHUS4.1': 'SCHUS4.1.fa',
            'SCHUS4.2': 'SCHUS4.2.fa'
        },
        'francisella_tularensis_snp.txt',
        'francisella_tularensis_tree.txt'
    )

Example #3

File: coxiella_burnetii.py Project: kvarq/kvarq-CanSNPer

from _CanSNPer import make_CanSNPer_testsuite, VERSION, GENES_COMPATIBILITY

coxiella_burnetii = make_CanSNPer_testsuite(
        VERSION,
        {'AE016828.2': 'AE016828.2.fa'},
        'coxiella_burnetii_snp.txt',
        'coxiella_burnetii_tree.txt'
    )

Example #4

File: bacillus_anthracis.py Project: kvarq/kvarq-CanSNPer

from _CanSNPer import make_CanSNPer_testsuite, VERSION, GENES_COMPATIBILITY

bacillus_anthracis = make_CanSNPer_testsuite(
        VERSION,
        dict(Ames='Ames.fa'),
        'bacillus_anthracis_snp.txt',
        'bacillus_anthracis_tree.txt'
    )