diff --git a/pycytominer/cyto_utils/parse_cp_features.py b/pycytominer/cyto_utils/parse_cp_features.py new file mode 100644 index 00000000..1e47eb6a --- /dev/null +++ b/pycytominer/cyto_utils/parse_cp_features.py @@ -0,0 +1,138 @@ +def parse_cp_features( + feature: str, channels: list = ["DNA", "RNA", "AGP", "Mito", "ER", "mito_tubeness"] +): + """Parses a CellProfiler feature string into its semantic components. + + This function will take a feature string and return a dictionary containing its semantic components, + specifically: the compartment, feature group, feature type, and channel. + If the feature string is not in a recognized format, the function will assign 'Unknown' to the non-comprehensible components. + Channel information will be returned as 'None' where it's not applicable. + + Parameters + ---------- + feature : str + The CellProfiler feature string to parse. + + channels : list, optional + A list of channel names to use when parsing the feature string. The default is ['DNA', 'RNA', 'AGP', 'Mito', 'ER', "mito_tubeness"]. + + Returns + ------- + dict + A dictionary with the following keys: 'feature', 'compartment', 'feature_group', 'feature_type', 'channel'. + Each key maps to the respective component of the feature string. + + Raises + ------ + ValueError + Raised if the input is not a string. + """ + + if not isinstance(feature, str): + raise ValueError(f"Expected a string, got {type(feature).__name__}") + + if not isinstance(channels, list): + raise ValueError(f"Expected a list, got {type(channels).__name__}") + + def channel_standardizer(channel): + channel = channel.replace("Orig", "") + return channel + + unique_token = "XUNIQUEX" + tokenized_feature = feature + for channel in channels: + tokenized_channel = channel.replace("_", unique_token) + tokenized_feature = tokenized_feature.replace(channel, tokenized_channel) + + parts = tokenized_feature.split("_") + + feature_group = parts[1] + if parts[0] not in ["Cells", "Cytoplasm", "Nuclei", "Image"]: + compartment = "XUNKNOWN" + feature_group = "XUNKNOWN" + feature_type = "XUNKNOWN" + channel = "XUNKNOWN" + else: + compartment = parts[0] + feature_group = parts[1] + feature_type = "XNONE" # default value + channel = "XNONE" # default value + + if feature_group in [ + "AreaShape", + "Neighbors", + "Children", + "Parent", + "Number", + "Threshold", + "ObjectSkeleton", + ]: + # Examples: + # Cells,AreaShape,Zernike_2_0 + # Cells,AreaShape,BoundingBoxArea + # Cells,Neighbors,AngleBetweenNeighbors_Adjacent + # Nuclei,Children,Cytoplasm_Count + # Nuclei,Parent,NucleiIncludingEdges + # Nuclei,Number,ObjectNumber + # Image,Threshold,SumOfEntropies_NucleiIncludingEdges + # Nuclei,ObjectSkeleton,NumberTrunks_mito_skel + + feature_type = parts[2] + + elif feature_group == "Location": + # Examples: + # Cells,Location_CenterMassIntensity_X_DNA + # Cells,Location_Center_X + + feature_type = parts[2] + if feature_type != "Center": + channel = parts[4] + + elif feature_group == "Count": + # Examples: + # Cells,Count,Cells + pass + + elif feature_group == "Granularity": + # Examples: + # Cells,Granularity,15_ER + channel = parts[3] + + elif feature_group in ["Intensity", "ImageQuality"]: + # Examples: + # Cells,Intensity,MeanIntensity_DNA + # Image,ImageQuality,MaxIntensity_OrigAGP + feature_type = parts[2] + channel = parts[3] + + elif feature_group == "Correlation": + # Examples: + # Cells,Correlation,Correlation_DNA_ER + feature_type = parts[2] + channel = [parts[3], parts[4]] + channel.sort() + channel = "_".join(channel) + + elif feature_group in ["Texture", "RadialDistribution"]: + # Examples: + # Cells,Texture,SumEntropy_ER_3_01_256 + # Cells,RadialDistribution,FracAtD_mito_tubeness_2of16 + feature_type = parts[2] + channel = parts[3] + + else: + feature_group = "XUNKNOWN" + feature_type = "XUNKNOWN" + channel = "XUNKNOWN" + + channel = "_".join(list(map(channel_standardizer, channel.split("_")))) + + channel = channel.replace(unique_token, "_") + + return { + "feature": feature, + "compartment": compartment, + "feature_group": feature_group, + "feature_type": feature_type, + "channel": channel, + } diff --git a/pycytominer/cyto_utils/parse_cp_features_cmd.py b/pycytominer/cyto_utils/parse_cp_features_cmd.py new file mode 100644 index 00000000..cfe01f7a --- /dev/null +++ b/pycytominer/cyto_utils/parse_cp_features_cmd.py @@ -0,0 +1,5 @@ +from pycytominer.cyto_utils.parse_cp_features import parse_cp_features +import fire + +if __name__ == "__main__": + fire.Fire(parse_cp_features) diff --git a/tests/test_cyto_utils/test_parse_cp_features.py b/tests/test_cyto_utils/test_parse_cp_features.py new file mode 100644 index 00000000..613d07b4 --- /dev/null +++ b/tests/test_cyto_utils/test_parse_cp_features.py @@ -0,0 +1,41 @@ +"""This tests parse_cp_features""" + +from pycytominer.cyto_utils.parse_cp_features import parse_cp_features +import pathlib +import pandas as pd + + +def test_parse_feature(): + feature_strings = [ + "Cells_RadialDistribution_RadialCV_mito_tubeness_Overflow", + "Cells_Texture_SumVariance_RNA_5", + "Nuclei_Intensity_MaxIntensityEdge_DNA", + "Cytoplasm_Correlation_Correlation_DNA_RNA", + "Image_AreaShape_Compactness", + ] + + for feature in feature_strings: + result = parse_cp_features(feature) + assert isinstance(result, dict) + assert result["feature"] == feature + assert result["compartment"] is not None + assert result["feature_group"] is not None + assert result["feature_type"] is not None + assert result["channel"] is not None + + +def test_parse_feature_with_file(): + cp_features_file = f"{pathlib.Path(__file__).parent.parent}/test_data/parse_cp_features_example_data/cp_features.txt" + with open(cp_features_file, "r") as file: + features = file.read().splitlines() + + parsed_features_df = pd.DataFrame( + [parse_cp_features(feature.strip()) for feature in features] + ) + + pd.testing.assert_frame_equal( + parsed_features_df, + pd.read_csv( + f"{pathlib.Path(__file__).parent.parent}/test_data/parse_cp_features_example_data/parsed_features.csv" + ), + ) diff --git a/tests/test_data/parse_cp_features_example_data/cp_features.txt b/tests/test_data/parse_cp_features_example_data/cp_features.txt new file mode 100644 index 00000000..46a9f881 --- /dev/null +++ b/tests/test_data/parse_cp_features_example_data/cp_features.txt @@ -0,0 +1,4781 @@ +Metadata_JCP2022 +Metadata_broad_sample +Metadata_Name +Metadata_Vector +Metadata_Transcript +Metadata_Symbol +Metadata_NCBI_Gene_ID +Metadata_Taxon_ID +Metadata_Gene_Description +Metadata_Prot_Match +Metadata_Insert_Length +Metadata_pert_type +Metadata_Source +Metadata_Plate +Metadata_Well +Metadata_plate_map_name +Cells_Count +Cells_AreaShape_Area +Cells_AreaShape_BoundingBoxArea +Cells_AreaShape_BoundingBoxMaximum_X +Cells_AreaShape_BoundingBoxMaximum_Y +Cells_AreaShape_BoundingBoxMinimum_X +Cells_AreaShape_BoundingBoxMinimum_Y +Cells_AreaShape_Center_X +Cells_AreaShape_Center_Y +Cells_AreaShape_Compactness +Cells_AreaShape_Eccentricity +Cells_AreaShape_EquivalentDiameter +Cells_AreaShape_EulerNumber +Cells_AreaShape_Extent +Cells_AreaShape_FormFactor +Cells_AreaShape_MajorAxisLength +Cells_AreaShape_MaxFeretDiameter +Cells_AreaShape_MaximumRadius +Cells_AreaShape_MeanRadius +Cells_AreaShape_MedianRadius +Cells_AreaShape_MinFeretDiameter +Cells_AreaShape_MinorAxisLength +Cells_AreaShape_Orientation +Cells_AreaShape_Perimeter +Cells_AreaShape_Solidity +Cells_AreaShape_Zernike_0_0 +Cells_AreaShape_Zernike_1_1 +Cells_AreaShape_Zernike_2_0 +Cells_AreaShape_Zernike_2_2 +Cells_AreaShape_Zernike_3_1 +Cells_AreaShape_Zernike_3_3 +Cells_AreaShape_Zernike_4_0 +Cells_AreaShape_Zernike_4_2 +Cells_AreaShape_Zernike_4_4 +Cells_AreaShape_Zernike_5_1 +Cells_AreaShape_Zernike_5_3 +Cells_AreaShape_Zernike_5_5 +Cells_AreaShape_Zernike_6_0 +Cells_AreaShape_Zernike_6_2 +Cells_AreaShape_Zernike_6_4 +Cells_AreaShape_Zernike_6_6 +Cells_AreaShape_Zernike_7_1 +Cells_AreaShape_Zernike_7_3 +Cells_AreaShape_Zernike_7_5 +Cells_AreaShape_Zernike_7_7 +Cells_AreaShape_Zernike_8_0 +Cells_AreaShape_Zernike_8_2 +Cells_AreaShape_Zernike_8_4 +Cells_AreaShape_Zernike_8_6 +Cells_AreaShape_Zernike_8_8 +Cells_AreaShape_Zernike_9_1 +Cells_AreaShape_Zernike_9_3 +Cells_AreaShape_Zernike_9_5 +Cells_AreaShape_Zernike_9_7 +Cells_AreaShape_Zernike_9_9 +Cells_Children_Cytoplasm_Count +Cells_Correlation_Correlation_AGP_DNA +Cells_Correlation_Correlation_AGP_ER +Cells_Correlation_Correlation_AGP_Mito +Cells_Correlation_Correlation_AGP_RNA +Cells_Correlation_Correlation_DNA_ER +Cells_Correlation_Correlation_DNA_Mito +Cells_Correlation_Correlation_DNA_RNA +Cells_Correlation_Correlation_ER_Mito +Cells_Correlation_Correlation_ER_RNA +Cells_Correlation_Correlation_Mito_RNA +Cells_Correlation_K_AGP_DNA +Cells_Correlation_K_AGP_ER +Cells_Correlation_K_AGP_Mito +Cells_Correlation_K_AGP_RNA +Cells_Correlation_K_DNA_AGP +Cells_Correlation_K_DNA_ER +Cells_Correlation_K_DNA_Mito +Cells_Correlation_K_DNA_RNA +Cells_Correlation_K_ER_AGP +Cells_Correlation_K_ER_DNA +Cells_Correlation_K_ER_Mito +Cells_Correlation_K_ER_RNA +Cells_Correlation_K_Mito_AGP +Cells_Correlation_K_Mito_DNA +Cells_Correlation_K_Mito_ER +Cells_Correlation_K_Mito_RNA +Cells_Correlation_K_RNA_AGP +Cells_Correlation_K_RNA_DNA +Cells_Correlation_K_RNA_ER +Cells_Correlation_K_RNA_Mito +Cells_Correlation_Manders_AGP_DNA +Cells_Correlation_Manders_AGP_ER +Cells_Correlation_Manders_AGP_Mito +Cells_Correlation_Manders_AGP_RNA +Cells_Correlation_Manders_DNA_AGP +Cells_Correlation_Manders_DNA_ER +Cells_Correlation_Manders_DNA_Mito +Cells_Correlation_Manders_DNA_RNA +Cells_Correlation_Manders_ER_AGP +Cells_Correlation_Manders_ER_DNA +Cells_Correlation_Manders_ER_Mito +Cells_Correlation_Manders_ER_RNA +Cells_Correlation_Manders_Mito_AGP +Cells_Correlation_Manders_Mito_DNA +Cells_Correlation_Manders_Mito_ER +Cells_Correlation_Manders_Mito_RNA +Cells_Correlation_Manders_RNA_AGP +Cells_Correlation_Manders_RNA_DNA +Cells_Correlation_Manders_RNA_ER +Cells_Correlation_Manders_RNA_Mito +Cells_Correlation_Overlap_AGP_DNA +Cells_Correlation_Overlap_AGP_ER +Cells_Correlation_Overlap_AGP_Mito +Cells_Correlation_Overlap_AGP_RNA +Cells_Correlation_Overlap_DNA_ER +Cells_Correlation_Overlap_DNA_Mito +Cells_Correlation_Overlap_DNA_RNA +Cells_Correlation_Overlap_ER_Mito +Cells_Correlation_Overlap_ER_RNA +Cells_Correlation_Overlap_Mito_RNA +Cells_Correlation_RWC_AGP_DNA +Cells_Correlation_RWC_AGP_ER +Cells_Correlation_RWC_AGP_Mito +Cells_Correlation_RWC_AGP_RNA +Cells_Correlation_RWC_DNA_AGP +Cells_Correlation_RWC_DNA_ER +Cells_Correlation_RWC_DNA_Mito +Cells_Correlation_RWC_DNA_RNA +Cells_Correlation_RWC_ER_AGP +Cells_Correlation_RWC_ER_DNA +Cells_Correlation_RWC_ER_Mito +Cells_Correlation_RWC_ER_RNA +Cells_Correlation_RWC_Mito_AGP +Cells_Correlation_RWC_Mito_DNA +Cells_Correlation_RWC_Mito_ER +Cells_Correlation_RWC_Mito_RNA +Cells_Correlation_RWC_RNA_AGP +Cells_Correlation_RWC_RNA_DNA +Cells_Correlation_RWC_RNA_ER +Cells_Correlation_RWC_RNA_Mito +Cells_Granularity_10_AGP +Cells_Granularity_10_DNA +Cells_Granularity_10_ER +Cells_Granularity_10_Mito +Cells_Granularity_10_RNA +Cells_Granularity_11_AGP +Cells_Granularity_11_DNA +Cells_Granularity_11_ER +Cells_Granularity_11_Mito +Cells_Granularity_11_RNA +Cells_Granularity_12_AGP +Cells_Granularity_12_DNA +Cells_Granularity_12_ER +Cells_Granularity_12_Mito +Cells_Granularity_12_RNA +Cells_Granularity_13_AGP +Cells_Granularity_13_DNA +Cells_Granularity_13_ER +Cells_Granularity_13_Mito +Cells_Granularity_13_RNA +Cells_Granularity_14_AGP +Cells_Granularity_14_DNA +Cells_Granularity_14_ER +Cells_Granularity_14_Mito +Cells_Granularity_14_RNA +Cells_Granularity_15_AGP +Cells_Granularity_15_DNA +Cells_Granularity_15_ER +Cells_Granularity_15_Mito +Cells_Granularity_15_RNA +Cells_Granularity_16_AGP +Cells_Granularity_16_DNA +Cells_Granularity_16_ER +Cells_Granularity_16_Mito +Cells_Granularity_16_RNA +Cells_Granularity_1_AGP +Cells_Granularity_1_DNA +Cells_Granularity_1_ER +Cells_Granularity_1_Mito +Cells_Granularity_1_RNA +Cells_Granularity_2_AGP +Cells_Granularity_2_DNA +Cells_Granularity_2_ER +Cells_Granularity_2_Mito +Cells_Granularity_2_RNA +Cells_Granularity_3_AGP +Cells_Granularity_3_DNA +Cells_Granularity_3_ER +Cells_Granularity_3_Mito +Cells_Granularity_3_RNA +Cells_Granularity_4_AGP +Cells_Granularity_4_DNA +Cells_Granularity_4_ER +Cells_Granularity_4_Mito +Cells_Granularity_4_RNA +Cells_Granularity_5_AGP +Cells_Granularity_5_DNA +Cells_Granularity_5_ER +Cells_Granularity_5_Mito +Cells_Granularity_5_RNA +Cells_Granularity_6_AGP +Cells_Granularity_6_DNA +Cells_Granularity_6_ER +Cells_Granularity_6_Mito +Cells_Granularity_6_RNA +Cells_Granularity_7_AGP +Cells_Granularity_7_DNA +Cells_Granularity_7_ER +Cells_Granularity_7_Mito +Cells_Granularity_7_RNA +Cells_Granularity_8_AGP +Cells_Granularity_8_DNA +Cells_Granularity_8_ER +Cells_Granularity_8_Mito +Cells_Granularity_8_RNA +Cells_Granularity_9_AGP +Cells_Granularity_9_DNA +Cells_Granularity_9_ER +Cells_Granularity_9_Mito +Cells_Granularity_9_RNA +Cells_Intensity_IntegratedIntensityEdge_AGP +Cells_Intensity_IntegratedIntensityEdge_DNA +Cells_Intensity_IntegratedIntensityEdge_ER +Cells_Intensity_IntegratedIntensityEdge_Mito +Cells_Intensity_IntegratedIntensityEdge_RNA +Cells_Intensity_IntegratedIntensity_AGP +Cells_Intensity_IntegratedIntensity_DNA +Cells_Intensity_IntegratedIntensity_ER +Cells_Intensity_IntegratedIntensity_Mito +Cells_Intensity_IntegratedIntensity_RNA +Cells_Intensity_LowerQuartileIntensity_AGP +Cells_Intensity_LowerQuartileIntensity_DNA +Cells_Intensity_LowerQuartileIntensity_ER +Cells_Intensity_LowerQuartileIntensity_Mito +Cells_Intensity_LowerQuartileIntensity_RNA +Cells_Intensity_MADIntensity_AGP +Cells_Intensity_MADIntensity_DNA +Cells_Intensity_MADIntensity_ER +Cells_Intensity_MADIntensity_Mito +Cells_Intensity_MADIntensity_RNA +Cells_Intensity_MassDisplacement_AGP +Cells_Intensity_MassDisplacement_DNA +Cells_Intensity_MassDisplacement_ER +Cells_Intensity_MassDisplacement_Mito +Cells_Intensity_MassDisplacement_RNA +Cells_Intensity_MaxIntensityEdge_AGP +Cells_Intensity_MaxIntensityEdge_DNA +Cells_Intensity_MaxIntensityEdge_ER +Cells_Intensity_MaxIntensityEdge_Mito +Cells_Intensity_MaxIntensityEdge_RNA +Cells_Intensity_MaxIntensity_AGP +Cells_Intensity_MaxIntensity_DNA +Cells_Intensity_MaxIntensity_ER +Cells_Intensity_MaxIntensity_Mito +Cells_Intensity_MaxIntensity_RNA +Cells_Intensity_MeanIntensityEdge_AGP +Cells_Intensity_MeanIntensityEdge_DNA +Cells_Intensity_MeanIntensityEdge_ER +Cells_Intensity_MeanIntensityEdge_Mito +Cells_Intensity_MeanIntensityEdge_RNA +Cells_Intensity_MeanIntensity_AGP +Cells_Intensity_MeanIntensity_DNA +Cells_Intensity_MeanIntensity_ER +Cells_Intensity_MeanIntensity_Mito +Cells_Intensity_MeanIntensity_RNA +Cells_Intensity_MedianIntensity_AGP +Cells_Intensity_MedianIntensity_DNA +Cells_Intensity_MedianIntensity_ER +Cells_Intensity_MedianIntensity_Mito +Cells_Intensity_MedianIntensity_RNA +Cells_Intensity_MinIntensityEdge_AGP +Cells_Intensity_MinIntensityEdge_DNA +Cells_Intensity_MinIntensityEdge_ER +Cells_Intensity_MinIntensityEdge_Mito +Cells_Intensity_MinIntensityEdge_RNA +Cells_Intensity_MinIntensity_AGP +Cells_Intensity_MinIntensity_DNA +Cells_Intensity_MinIntensity_ER +Cells_Intensity_MinIntensity_Mito +Cells_Intensity_MinIntensity_RNA +Cells_Intensity_StdIntensityEdge_AGP +Cells_Intensity_StdIntensityEdge_DNA +Cells_Intensity_StdIntensityEdge_ER +Cells_Intensity_StdIntensityEdge_Mito +Cells_Intensity_StdIntensityEdge_RNA +Cells_Intensity_StdIntensity_AGP +Cells_Intensity_StdIntensity_DNA +Cells_Intensity_StdIntensity_ER +Cells_Intensity_StdIntensity_Mito +Cells_Intensity_StdIntensity_RNA +Cells_Intensity_UpperQuartileIntensity_AGP +Cells_Intensity_UpperQuartileIntensity_DNA +Cells_Intensity_UpperQuartileIntensity_ER +Cells_Intensity_UpperQuartileIntensity_Mito +Cells_Intensity_UpperQuartileIntensity_RNA +Cells_Neighbors_AngleBetweenNeighbors_5 +Cells_Neighbors_AngleBetweenNeighbors_Adjacent +Cells_Neighbors_FirstClosestDistance_5 +Cells_Neighbors_FirstClosestDistance_Adjacent +Cells_Neighbors_FirstClosestObjectNumber_5 +Cells_Neighbors_FirstClosestObjectNumber_Adjacent +Cells_Neighbors_NumberOfNeighbors_5 +Cells_Neighbors_NumberOfNeighbors_Adjacent +Cells_Neighbors_PercentTouching_5 +Cells_Neighbors_PercentTouching_Adjacent +Cells_Neighbors_SecondClosestDistance_5 +Cells_Neighbors_SecondClosestDistance_Adjacent +Cells_Neighbors_SecondClosestObjectNumber_5 +Cells_Neighbors_SecondClosestObjectNumber_Adjacent +Cells_Parent_CellsIncludingEdges +Cells_RadialDistribution_FracAtD_AGP_1of4 +Cells_RadialDistribution_FracAtD_AGP_2of4 +Cells_RadialDistribution_FracAtD_AGP_3of4 +Cells_RadialDistribution_FracAtD_AGP_4of4 +Cells_RadialDistribution_FracAtD_DNA_1of4 +Cells_RadialDistribution_FracAtD_DNA_2of4 +Cells_RadialDistribution_FracAtD_DNA_3of4 +Cells_RadialDistribution_FracAtD_DNA_4of4 +Cells_RadialDistribution_FracAtD_ER_1of4 +Cells_RadialDistribution_FracAtD_ER_2of4 +Cells_RadialDistribution_FracAtD_ER_3of4 +Cells_RadialDistribution_FracAtD_ER_4of4 +Cells_RadialDistribution_FracAtD_Mito_1of4 +Cells_RadialDistribution_FracAtD_Mito_2of4 +Cells_RadialDistribution_FracAtD_Mito_3of4 +Cells_RadialDistribution_FracAtD_Mito_4of4 +Cells_RadialDistribution_FracAtD_RNA_1of4 +Cells_RadialDistribution_FracAtD_RNA_2of4 +Cells_RadialDistribution_FracAtD_RNA_3of4 +Cells_RadialDistribution_FracAtD_RNA_4of4 +Cells_RadialDistribution_FracAtD_mito_tubeness_10of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_10of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_11of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_11of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_12of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_12of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_13of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_13of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_14of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_14of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_15of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_15of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_16of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_16of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_17of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_18of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_19of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_1of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_1of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_20of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_2of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_2of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_3of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_3of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_4of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_4of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_5of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_5of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_6of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_6of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_7of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_7of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_8of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_8of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_9of16 +Cells_RadialDistribution_FracAtD_mito_tubeness_9of20 +Cells_RadialDistribution_FracAtD_mito_tubeness_Overflow +Cells_RadialDistribution_MeanFrac_AGP_1of4 +Cells_RadialDistribution_MeanFrac_AGP_2of4 +Cells_RadialDistribution_MeanFrac_AGP_3of4 +Cells_RadialDistribution_MeanFrac_AGP_4of4 +Cells_RadialDistribution_MeanFrac_DNA_1of4 +Cells_RadialDistribution_MeanFrac_DNA_2of4 +Cells_RadialDistribution_MeanFrac_DNA_3of4 +Cells_RadialDistribution_MeanFrac_DNA_4of4 +Cells_RadialDistribution_MeanFrac_ER_1of4 +Cells_RadialDistribution_MeanFrac_ER_2of4 +Cells_RadialDistribution_MeanFrac_ER_3of4 +Cells_RadialDistribution_MeanFrac_ER_4of4 +Cells_RadialDistribution_MeanFrac_Mito_1of4 +Cells_RadialDistribution_MeanFrac_Mito_2of4 +Cells_RadialDistribution_MeanFrac_Mito_3of4 +Cells_RadialDistribution_MeanFrac_Mito_4of4 +Cells_RadialDistribution_MeanFrac_RNA_1of4 +Cells_RadialDistribution_MeanFrac_RNA_2of4 +Cells_RadialDistribution_MeanFrac_RNA_3of4 +Cells_RadialDistribution_MeanFrac_RNA_4of4 +Cells_RadialDistribution_MeanFrac_mito_tubeness_10of16 +Cells_RadialDistribution_MeanFrac_mito_tubeness_10of20 +Cells_RadialDistribution_MeanFrac_mito_tubeness_11of16 +Cells_RadialDistribution_MeanFrac_mito_tubeness_11of20 +Cells_RadialDistribution_MeanFrac_mito_tubeness_12of16 +Cells_RadialDistribution_MeanFrac_mito_tubeness_12of20 +Cells_RadialDistribution_MeanFrac_mito_tubeness_13of16 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+Image_ImageQuality_LocalFocusScore_OrigAGP_20 +Image_ImageQuality_LocalFocusScore_OrigAGP_5 +Image_ImageQuality_LocalFocusScore_OrigAGP_50 +Image_ImageQuality_LocalFocusScore_OrigDNA_10 +Image_ImageQuality_LocalFocusScore_OrigDNA_20 +Image_ImageQuality_LocalFocusScore_OrigDNA_5 +Image_ImageQuality_LocalFocusScore_OrigDNA_50 +Image_ImageQuality_LocalFocusScore_OrigER_10 +Image_ImageQuality_LocalFocusScore_OrigER_20 +Image_ImageQuality_LocalFocusScore_OrigER_5 +Image_ImageQuality_LocalFocusScore_OrigER_50 +Image_ImageQuality_LocalFocusScore_OrigMito_10 +Image_ImageQuality_LocalFocusScore_OrigMito_20 +Image_ImageQuality_LocalFocusScore_OrigMito_5 +Image_ImageQuality_LocalFocusScore_OrigMito_50 +Image_ImageQuality_LocalFocusScore_OrigRNA_10 +Image_ImageQuality_LocalFocusScore_OrigRNA_20 +Image_ImageQuality_LocalFocusScore_OrigRNA_5 +Image_ImageQuality_LocalFocusScore_OrigRNA_50 +Image_ImageQuality_MADIntensity_OrigAGP +Image_ImageQuality_MADIntensity_OrigDNA 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+Image_ImageQuality_PercentMaximal_OrigAGP +Image_ImageQuality_PercentMaximal_OrigDNA +Image_ImageQuality_PercentMaximal_OrigER +Image_ImageQuality_PercentMaximal_OrigMito +Image_ImageQuality_PercentMaximal_OrigRNA +Image_ImageQuality_PercentMinimal_OrigAGP +Image_ImageQuality_PercentMinimal_OrigDNA +Image_ImageQuality_PercentMinimal_OrigER +Image_ImageQuality_PercentMinimal_OrigMito +Image_ImageQuality_PercentMinimal_OrigRNA +Image_ImageQuality_PowerLogLogSlope_OrigAGP +Image_ImageQuality_PowerLogLogSlope_OrigDNA +Image_ImageQuality_PowerLogLogSlope_OrigER +Image_ImageQuality_PowerLogLogSlope_OrigMito +Image_ImageQuality_PowerLogLogSlope_OrigRNA +Image_ImageQuality_Scaling_OrigAGP +Image_ImageQuality_Scaling_OrigDNA +Image_ImageQuality_Scaling_OrigER +Image_ImageQuality_Scaling_OrigMito +Image_ImageQuality_Scaling_OrigRNA +Image_ImageQuality_StdIntensity_OrigAGP +Image_ImageQuality_StdIntensity_OrigDNA +Image_ImageQuality_StdIntensity_OrigER +Image_ImageQuality_StdIntensity_OrigMito +Image_ImageQuality_StdIntensity_OrigRNA +Image_ImageQuality_ThresholdOtsu_OrigDNA_2W +Image_ImageQuality_ThresholdOtsu_OrigRNA_3FW +Image_ImageQuality_TotalArea_OrigAGP +Image_ImageQuality_TotalArea_OrigDNA +Image_ImageQuality_TotalArea_OrigER +Image_ImageQuality_TotalArea_OrigMito +Image_ImageQuality_TotalArea_OrigRNA +Image_ImageQuality_TotalIntensity_OrigAGP +Image_ImageQuality_TotalIntensity_OrigDNA +Image_ImageQuality_TotalIntensity_OrigER +Image_ImageQuality_TotalIntensity_OrigMito +Image_ImageQuality_TotalIntensity_OrigRNA +Image_Intensity_LowerQuartileIntensity_AGP +Image_Intensity_LowerQuartileIntensity_AGP__BackgroundOnly +Image_Intensity_LowerQuartileIntensity_DNA +Image_Intensity_LowerQuartileIntensity_DNA_BackgroundOnly +Image_Intensity_LowerQuartileIntensity_ER +Image_Intensity_LowerQuartileIntensity_ER__BackgroundOnly +Image_Intensity_LowerQuartileIntensity_Mito +Image_Intensity_LowerQuartileIntensity_Mito_BackgroundOnly +Image_Intensity_LowerQuartileIntensity_RNA +Image_Intensity_LowerQuartileIntensity_RNA_BackgroundOnly +Image_Intensity_MADIntensity_AGP +Image_Intensity_MADIntensity_AGP__BackgroundOnly +Image_Intensity_MADIntensity_DNA +Image_Intensity_MADIntensity_DNA_BackgroundOnly +Image_Intensity_MADIntensity_ER +Image_Intensity_MADIntensity_ER__BackgroundOnly +Image_Intensity_MADIntensity_Mito +Image_Intensity_MADIntensity_Mito_BackgroundOnly +Image_Intensity_MADIntensity_RNA +Image_Intensity_MADIntensity_RNA_BackgroundOnly +Image_Intensity_MaxIntensity_AGP +Image_Intensity_MaxIntensity_AGP__BackgroundOnly +Image_Intensity_MaxIntensity_DNA +Image_Intensity_MaxIntensity_DNA_BackgroundOnly +Image_Intensity_MaxIntensity_ER +Image_Intensity_MaxIntensity_ER__BackgroundOnly +Image_Intensity_MaxIntensity_Mito +Image_Intensity_MaxIntensity_Mito_BackgroundOnly +Image_Intensity_MaxIntensity_RNA +Image_Intensity_MaxIntensity_RNA_BackgroundOnly +Image_Intensity_MeanIntensity_AGP +Image_Intensity_MeanIntensity_AGP__BackgroundOnly 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+Nuclei_Granularity_3_RNA +Nuclei_Granularity_4_AGP +Nuclei_Granularity_4_DNA +Nuclei_Granularity_4_ER +Nuclei_Granularity_4_Mito +Nuclei_Granularity_4_RNA +Nuclei_Granularity_5_AGP +Nuclei_Granularity_5_DNA +Nuclei_Granularity_5_ER +Nuclei_Granularity_5_Mito +Nuclei_Granularity_5_RNA +Nuclei_Granularity_6_AGP +Nuclei_Granularity_6_DNA +Nuclei_Granularity_6_ER +Nuclei_Granularity_6_Mito +Nuclei_Granularity_6_RNA +Nuclei_Granularity_7_AGP +Nuclei_Granularity_7_DNA +Nuclei_Granularity_7_ER +Nuclei_Granularity_7_Mito +Nuclei_Granularity_7_RNA +Nuclei_Granularity_8_AGP +Nuclei_Granularity_8_DNA +Nuclei_Granularity_8_ER +Nuclei_Granularity_8_Mito +Nuclei_Granularity_8_RNA +Nuclei_Granularity_9_AGP +Nuclei_Granularity_9_DNA +Nuclei_Granularity_9_ER +Nuclei_Granularity_9_Mito +Nuclei_Granularity_9_RNA +Nuclei_Intensity_IntegratedIntensityEdge_AGP +Nuclei_Intensity_IntegratedIntensityEdge_DNA +Nuclei_Intensity_IntegratedIntensityEdge_ER +Nuclei_Intensity_IntegratedIntensityEdge_Mito +Nuclei_Intensity_IntegratedIntensityEdge_RNA +Nuclei_Intensity_IntegratedIntensity_AGP +Nuclei_Intensity_IntegratedIntensity_DNA +Nuclei_Intensity_IntegratedIntensity_ER +Nuclei_Intensity_IntegratedIntensity_Mito +Nuclei_Intensity_IntegratedIntensity_RNA +Nuclei_Intensity_LowerQuartileIntensity_AGP +Nuclei_Intensity_LowerQuartileIntensity_DNA +Nuclei_Intensity_LowerQuartileIntensity_ER +Nuclei_Intensity_LowerQuartileIntensity_Mito +Nuclei_Intensity_LowerQuartileIntensity_RNA +Nuclei_Intensity_MADIntensity_AGP +Nuclei_Intensity_MADIntensity_DNA +Nuclei_Intensity_MADIntensity_ER +Nuclei_Intensity_MADIntensity_Mito +Nuclei_Intensity_MADIntensity_RNA +Nuclei_Intensity_MassDisplacement_AGP +Nuclei_Intensity_MassDisplacement_DNA +Nuclei_Intensity_MassDisplacement_ER +Nuclei_Intensity_MassDisplacement_Mito +Nuclei_Intensity_MassDisplacement_RNA +Nuclei_Intensity_MaxIntensityEdge_AGP +Nuclei_Intensity_MaxIntensityEdge_DNA +Nuclei_Intensity_MaxIntensityEdge_ER 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+Nuclei_Correlation_Overlap_AGP_DNA,Nuclei,Correlation,Overlap,AGP_DNA +Nuclei_Correlation_Overlap_AGP_ER,Nuclei,Correlation,Overlap,AGP_ER +Nuclei_Correlation_Overlap_AGP_Mito,Nuclei,Correlation,Overlap,AGP_Mito +Nuclei_Correlation_Overlap_AGP_RNA,Nuclei,Correlation,Overlap,AGP_RNA +Nuclei_Correlation_Overlap_DNA_ER,Nuclei,Correlation,Overlap,DNA_ER +Nuclei_Correlation_Overlap_DNA_Mito,Nuclei,Correlation,Overlap,DNA_Mito +Nuclei_Correlation_Overlap_DNA_RNA,Nuclei,Correlation,Overlap,DNA_RNA +Nuclei_Correlation_Overlap_ER_Mito,Nuclei,Correlation,Overlap,ER_Mito +Nuclei_Correlation_Overlap_ER_RNA,Nuclei,Correlation,Overlap,ER_RNA +Nuclei_Correlation_Overlap_Mito_RNA,Nuclei,Correlation,Overlap,Mito_RNA +Nuclei_Correlation_RWC_AGP_DNA,Nuclei,Correlation,RWC,AGP_DNA +Nuclei_Correlation_RWC_AGP_ER,Nuclei,Correlation,RWC,AGP_ER +Nuclei_Correlation_RWC_AGP_Mito,Nuclei,Correlation,RWC,AGP_Mito +Nuclei_Correlation_RWC_AGP_RNA,Nuclei,Correlation,RWC,AGP_RNA +Nuclei_Correlation_RWC_DNA_AGP,Nuclei,Correlation,RWC,AGP_DNA +Nuclei_Correlation_RWC_DNA_ER,Nuclei,Correlation,RWC,DNA_ER +Nuclei_Correlation_RWC_DNA_Mito,Nuclei,Correlation,RWC,DNA_Mito +Nuclei_Correlation_RWC_DNA_RNA,Nuclei,Correlation,RWC,DNA_RNA +Nuclei_Correlation_RWC_ER_AGP,Nuclei,Correlation,RWC,AGP_ER +Nuclei_Correlation_RWC_ER_DNA,Nuclei,Correlation,RWC,DNA_ER +Nuclei_Correlation_RWC_ER_Mito,Nuclei,Correlation,RWC,ER_Mito +Nuclei_Correlation_RWC_ER_RNA,Nuclei,Correlation,RWC,ER_RNA +Nuclei_Correlation_RWC_Mito_AGP,Nuclei,Correlation,RWC,AGP_Mito +Nuclei_Correlation_RWC_Mito_DNA,Nuclei,Correlation,RWC,DNA_Mito +Nuclei_Correlation_RWC_Mito_ER,Nuclei,Correlation,RWC,ER_Mito +Nuclei_Correlation_RWC_Mito_RNA,Nuclei,Correlation,RWC,Mito_RNA +Nuclei_Correlation_RWC_RNA_AGP,Nuclei,Correlation,RWC,AGP_RNA +Nuclei_Correlation_RWC_RNA_DNA,Nuclei,Correlation,RWC,DNA_RNA +Nuclei_Correlation_RWC_RNA_ER,Nuclei,Correlation,RWC,ER_RNA 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+Nuclei_Intensity_MaxIntensityEdge_Mito,Nuclei,Intensity,MaxIntensityEdge,Mito +Nuclei_Intensity_MaxIntensityEdge_RNA,Nuclei,Intensity,MaxIntensityEdge,RNA +Nuclei_Intensity_MaxIntensity_AGP,Nuclei,Intensity,MaxIntensity,AGP +Nuclei_Intensity_MaxIntensity_DNA,Nuclei,Intensity,MaxIntensity,DNA +Nuclei_Intensity_MaxIntensity_ER,Nuclei,Intensity,MaxIntensity,ER +Nuclei_Intensity_MaxIntensity_Mito,Nuclei,Intensity,MaxIntensity,Mito +Nuclei_Intensity_MaxIntensity_RNA,Nuclei,Intensity,MaxIntensity,RNA +Nuclei_Intensity_MeanIntensityEdge_AGP,Nuclei,Intensity,MeanIntensityEdge,AGP +Nuclei_Intensity_MeanIntensityEdge_DNA,Nuclei,Intensity,MeanIntensityEdge,DNA +Nuclei_Intensity_MeanIntensityEdge_ER,Nuclei,Intensity,MeanIntensityEdge,ER +Nuclei_Intensity_MeanIntensityEdge_Mito,Nuclei,Intensity,MeanIntensityEdge,Mito +Nuclei_Intensity_MeanIntensityEdge_RNA,Nuclei,Intensity,MeanIntensityEdge,RNA +Nuclei_Intensity_MeanIntensity_AGP,Nuclei,Intensity,MeanIntensity,AGP +Nuclei_Intensity_MeanIntensity_DNA,Nuclei,Intensity,MeanIntensity,DNA +Nuclei_Intensity_MeanIntensity_ER,Nuclei,Intensity,MeanIntensity,ER +Nuclei_Intensity_MeanIntensity_Mito,Nuclei,Intensity,MeanIntensity,Mito +Nuclei_Intensity_MeanIntensity_RNA,Nuclei,Intensity,MeanIntensity,RNA +Nuclei_Intensity_MedianIntensity_AGP,Nuclei,Intensity,MedianIntensity,AGP +Nuclei_Intensity_MedianIntensity_DNA,Nuclei,Intensity,MedianIntensity,DNA +Nuclei_Intensity_MedianIntensity_ER,Nuclei,Intensity,MedianIntensity,ER +Nuclei_Intensity_MedianIntensity_Mito,Nuclei,Intensity,MedianIntensity,Mito +Nuclei_Intensity_MedianIntensity_RNA,Nuclei,Intensity,MedianIntensity,RNA +Nuclei_Intensity_MinIntensityEdge_AGP,Nuclei,Intensity,MinIntensityEdge,AGP +Nuclei_Intensity_MinIntensityEdge_DNA,Nuclei,Intensity,MinIntensityEdge,DNA +Nuclei_Intensity_MinIntensityEdge_ER,Nuclei,Intensity,MinIntensityEdge,ER +Nuclei_Intensity_MinIntensityEdge_Mito,Nuclei,Intensity,MinIntensityEdge,Mito +Nuclei_Intensity_MinIntensityEdge_RNA,Nuclei,Intensity,MinIntensityEdge,RNA +Nuclei_Intensity_MinIntensity_AGP,Nuclei,Intensity,MinIntensity,AGP +Nuclei_Intensity_MinIntensity_DNA,Nuclei,Intensity,MinIntensity,DNA +Nuclei_Intensity_MinIntensity_ER,Nuclei,Intensity,MinIntensity,ER +Nuclei_Intensity_MinIntensity_Mito,Nuclei,Intensity,MinIntensity,Mito +Nuclei_Intensity_MinIntensity_RNA,Nuclei,Intensity,MinIntensity,RNA +Nuclei_Intensity_StdIntensityEdge_AGP,Nuclei,Intensity,StdIntensityEdge,AGP +Nuclei_Intensity_StdIntensityEdge_DNA,Nuclei,Intensity,StdIntensityEdge,DNA +Nuclei_Intensity_StdIntensityEdge_ER,Nuclei,Intensity,StdIntensityEdge,ER +Nuclei_Intensity_StdIntensityEdge_Mito,Nuclei,Intensity,StdIntensityEdge,Mito +Nuclei_Intensity_StdIntensityEdge_RNA,Nuclei,Intensity,StdIntensityEdge,RNA +Nuclei_Intensity_StdIntensity_AGP,Nuclei,Intensity,StdIntensity,AGP +Nuclei_Intensity_StdIntensity_DNA,Nuclei,Intensity,StdIntensity,DNA +Nuclei_Intensity_StdIntensity_ER,Nuclei,Intensity,StdIntensity,ER +Nuclei_Intensity_StdIntensity_Mito,Nuclei,Intensity,StdIntensity,Mito +Nuclei_Intensity_StdIntensity_RNA,Nuclei,Intensity,StdIntensity,RNA +Nuclei_Intensity_UpperQuartileIntensity_AGP,Nuclei,Intensity,UpperQuartileIntensity,AGP +Nuclei_Intensity_UpperQuartileIntensity_DNA,Nuclei,Intensity,UpperQuartileIntensity,DNA +Nuclei_Intensity_UpperQuartileIntensity_ER,Nuclei,Intensity,UpperQuartileIntensity,ER +Nuclei_Intensity_UpperQuartileIntensity_Mito,Nuclei,Intensity,UpperQuartileIntensity,Mito +Nuclei_Intensity_UpperQuartileIntensity_RNA,Nuclei,Intensity,UpperQuartileIntensity,RNA +Nuclei_Location_CenterMassIntensity_X_AGP,Nuclei,Location,CenterMassIntensity,AGP +Nuclei_Location_CenterMassIntensity_X_DNA,Nuclei,Location,CenterMassIntensity,DNA +Nuclei_Location_CenterMassIntensity_X_ER,Nuclei,Location,CenterMassIntensity,ER +Nuclei_Location_CenterMassIntensity_X_Mito,Nuclei,Location,CenterMassIntensity,Mito +Nuclei_Location_CenterMassIntensity_X_RNA,Nuclei,Location,CenterMassIntensity,RNA +Nuclei_Location_CenterMassIntensity_Y_AGP,Nuclei,Location,CenterMassIntensity,AGP +Nuclei_Location_CenterMassIntensity_Y_DNA,Nuclei,Location,CenterMassIntensity,DNA +Nuclei_Location_CenterMassIntensity_Y_ER,Nuclei,Location,CenterMassIntensity,ER +Nuclei_Location_CenterMassIntensity_Y_Mito,Nuclei,Location,CenterMassIntensity,Mito +Nuclei_Location_CenterMassIntensity_Y_RNA,Nuclei,Location,CenterMassIntensity,RNA +Nuclei_Location_CenterMassIntensity_Z_AGP,Nuclei,Location,CenterMassIntensity,AGP +Nuclei_Location_CenterMassIntensity_Z_DNA,Nuclei,Location,CenterMassIntensity,DNA +Nuclei_Location_CenterMassIntensity_Z_ER,Nuclei,Location,CenterMassIntensity,ER +Nuclei_Location_CenterMassIntensity_Z_Mito,Nuclei,Location,CenterMassIntensity,Mito +Nuclei_Location_CenterMassIntensity_Z_RNA,Nuclei,Location,CenterMassIntensity,RNA +Nuclei_Location_Center_X,Nuclei,Location,Center,XNONE +Nuclei_Location_Center_Y,Nuclei,Location,Center,XNONE +Nuclei_Location_Center_Z,Nuclei,Location,Center,XNONE +Nuclei_Location_MaxIntensity_X_AGP,Nuclei,Location,MaxIntensity,AGP +Nuclei_Location_MaxIntensity_X_DNA,Nuclei,Location,MaxIntensity,DNA +Nuclei_Location_MaxIntensity_X_ER,Nuclei,Location,MaxIntensity,ER +Nuclei_Location_MaxIntensity_X_Mito,Nuclei,Location,MaxIntensity,Mito +Nuclei_Location_MaxIntensity_X_RNA,Nuclei,Location,MaxIntensity,RNA +Nuclei_Location_MaxIntensity_Y_AGP,Nuclei,Location,MaxIntensity,AGP +Nuclei_Location_MaxIntensity_Y_DNA,Nuclei,Location,MaxIntensity,DNA +Nuclei_Location_MaxIntensity_Y_ER,Nuclei,Location,MaxIntensity,ER +Nuclei_Location_MaxIntensity_Y_Mito,Nuclei,Location,MaxIntensity,Mito +Nuclei_Location_MaxIntensity_Y_RNA,Nuclei,Location,MaxIntensity,RNA +Nuclei_Location_MaxIntensity_Z_AGP,Nuclei,Location,MaxIntensity,AGP +Nuclei_Location_MaxIntensity_Z_DNA,Nuclei,Location,MaxIntensity,DNA 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