def test_get_limma_stats_raises_for_invalid_subsets(self):
df = pd.DataFrame([[5, 10, 15, 20]],
index=['foo'],
columns=[0, 1, 2, 3])
subsets = [[0, 1]]
with pytest.raises(ValueError) as e:
array_stats.get_limma_stats(df=df, subsets=subsets)
assert 'requires at least two' in e
def test_get_limma_stats_returns_correct_for_2_groups(self):
df = pd.DataFrame([[5, 10, 15, 20]],
index=['foo'],
columns=[0, 1, 2, 3])
subsets = [[0, 1], [2, 3]]
stats = array_stats.get_limma_stats(df=df, subsets=subsets)
assert all(
stat in list(stats) for stat in
['feature', 'logFC', 'AveExpr', 't', 'P.Value', 'adj.P.Val', 'B'])
def test_get_limma_stats_raises_for_invalid_df(self):
df = pd.DataFrame([], index=['foo'], columns=[])
subsets = [[0], [0]]
with pytest.raises(ValueError) as e:
array_stats.get_limma_stats(df=df, subsets=subsets)
assert 'dimension 1x2 or more' in e