def test_read_splice_sites(exon2_bed, direction, simulated_fasta,
simulated_chromsizes, negative_control_folder):
from outrigger.validate.check_splice_sites import read_splice_sites
test = read_splice_sites(exon2_bed, simulated_chromsizes, simulated_fasta,
direction)
csv = os.path.join(negative_control_folder,
'exon2_{}_splice_sites.csv'.format(direction))
true = pd.read_csv(csv, index_col=0, squeeze=True, header=None, names=None)
true.name = None
true.index.name = None
pdt.assert_series_equal(test, true)
def individual_exon_splice_sites(self, exon, splice_abbrev, direction):
exon_bed = os.path.join(self.input_index, splice_abbrev,
'{}.bed'.format(exon))
splice_sites = check_splice_sites.read_splice_sites(
exon_bed, self.genome, self.fasta, direction)
return splice_sites
