Python AnnData.filename示例

示例#1

文件： test_preprocessing.py 项目： umangv/scanpy

def test_log1p_chunked():
    A = np.random.rand(200, 10)
    ad = AnnData(A)
    ad2 = AnnData(A)
    ad3 = AnnData(A)
    ad3.filename = 'test.h5ad'
    sc.pp.log1p(ad)
    sc.pp.log1p(ad2, chunked=True)
    assert np.allclose(ad2.X, ad.X)
    sc.pp.log1p(ad3, chunked=True)
    assert np.allclose(ad3.X, ad.X)

示例#2

文件： test_preprocessing.py 项目： vikram-saha/scanpy

def test_log1p(tmp_path):
    A = np.random.rand(200, 10)
    A_l = np.log1p(A)
    ad = AnnData(A)
    ad2 = AnnData(A)
    ad3 = AnnData(A)
    ad3.filename = tmp_path / 'test.h5ad'
    sc.pp.log1p(ad)
    assert np.allclose(ad.X, A_l)
    sc.pp.log1p(ad2, chunked=True)
    assert np.allclose(ad2.X, ad.X)
    sc.pp.log1p(ad3, chunked=True)
    assert np.allclose(ad3.X, ad.X)

    # Test base
    ad4 = AnnData(A)
    sc.pp.log1p(ad4, base=2)
    assert np.allclose(ad4.X, A_l / np.log(2))