{ "cells": [ { "cell_type": "markdown", "id": "1107981a-6197-4184-8327-03ed05b31a5e", "metadata": {}, "source": [ "# II. BACKGROUND SUBSTRACTION NOTEBOOK" ] }, { "cell_type": "raw", "id": "a0c470f4-c306-4b84-8aa5-d8b3daf9c810", "metadata": {}, "source": [ "10/01/24\n", "Modifications by Zoé Gerber\n", "from an original code from Marilyne Labrie" ] }, { "cell_type": "raw", "id": "d53c8eb3-f434-4f16-bbd4-4f757747b501", "metadata": {}, "source": [ "II.1. PACKAGES IMPORT\n", "II.2. DIRECTORIES\n", "II.3. FILES\n", " II.3.1. METADATA\n", " II.3.2. NOT_INTENSITIES\n", " II.3.3. FULL_TO_SHORT_COLUMN_NAMES\n", " II.3.4. SHORT_TO_FULL_COLUMN_NAMES\n", " II.3.5. SAMPLES COLORS\n", " II.3.6. CHANNELS COLORS\n", " II.3.7. ROUNDS COLORS\n", " II.3.8. DATA\n", "II.4. FILTERING\n", "II.5. CELL TYPES COLORS\n", "II.6. CELL SUBTYPES COLORS\n", "\n", "II.7. BACKGROUND SUBSTRACTION\n", "II.8. SAVE" ] }, { "cell_type": "markdown", "id": "125cf03e-b740-4daa-9b16-21057959faee", "metadata": {}, "source": [ "## II.1. PACKAGES IMPORT" ] }, { "cell_type": "code", "execution_count": 27, "id": "b4faaea6-5510-44e5-9e8d-b9160dc4b3b5", "metadata": {}, "outputs": [ { "data": { "text/html": [ " \n", " " ] }, "metadata": {}, "output_type": "display_data" } ], "source": [ "import os\n", "import random\n", "import re\n", "import pandas as pd\n", "import numpy as np\n", "import seaborn as sb\n", "import matplotlib.pyplot as plt\n", "import matplotlib.colors as mplc\n", "import subprocess\n", "import warnings\n", "\n", "from scipy import signal\n", "\n", "import plotly.figure_factory as ff\n", "import plotly\n", "import plotly.graph_objs as go\n", "from plotly.offline import download_plotlyjs, init_notebook_mode, plot, iplot \n", "import plotly.express as px\n", "init_notebook_mode(connected = True)\n", "\n", "from my_modules import *" ] }, { "cell_type": "code", "execution_count": 28, "id": "41c1e319-4dfb-43a2-b38b-83b789498988", "metadata": {}, "outputs": [], "source": [ "#Silence FutureWarnings & UserWarnings\n", "warnings.filterwarnings('ignore', category= FutureWarning)\n", "warnings.filterwarnings('ignore', category= UserWarning)" ] }, { "cell_type": "markdown", "id": "7946a507-14f5-4dd0-b2f7-a8b1ced9c3df", "metadata": {}, "source": [ "## II.2. *DIRECTORIES" ] }, { "cell_type": "code", "execution_count": 35, "id": "108f1f6d-4cd5-495f-91b7-b826f3d1f772", "metadata": {}, "outputs": [], "source": [ "# Set base directory\n", "\n", "##### MAC WORKSTATION #####\n", "#base_dir = r'/Volumes/LaboLabrie/Projets/OC_TMA_Pejovic/Temp/Zoe/CyCIF_pipeline/'\n", "###########################\n", "\n", "##### WINDOWS WORKSTATION #####\n", "#base_dir = r'C:\\Users\\LaboLabrie\\gerz2701\\cyCIF-pipeline\\Set_B'\n", "###############################\n", "\n", "##### LOCAL WORKSTATION #####\n", "base_dir = r'/Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/'\n", "#############################\n", "\n", "#set_name = 'Set_A'\n", "set_name = 'test'" ] }, { "cell_type": "raw", "id": "aa48c54f-12f6-4f27-bb71-edcae686bb2b", "metadata": {}, "source": [ "The project is organized as :\n", "main dir \n", " code\n", " proj_data > all csv files\n", " proj_metadata > exposure time csv file, images dir,...\n", " proj_qc_eda > csv after the QC/EDA step\n", " proj_bs > csv after the BS step" ] }, { "cell_type": "code", "execution_count": 36, "id": "a64af03a-7a84-4121-8eaa-7f08e6b3b21e", "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "The /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/ directory already exists !\n", "The /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_qc_eda directory already exists !\n", "The /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_bs directory already exists !\n", "The /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_bs/images directory already exists !\n", "The /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_metadata directory already exists !\n", "The /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_metadata/images directory already exists !\n" ] } ], "source": [ "project_name = set_name # Project name\n", "step_suffix = 'bs' # Curent part (here part II)\n", "previous_step_suffix_long = \"_qc_eda\" # Previous part (here QC/EDA NOTEBOOK)\n", "\n", "# Initial input data directory\n", "input_data_dir = os.path.join(base_dir, project_name + previous_step_suffix_long) \n", "\n", "# BS output directories\n", "output_data_dir = os.path.join(base_dir, project_name + \"_\" + step_suffix)\n", "# BS images subdirectory\n", "output_images_dir = os.path.join(output_data_dir,\"images\")\n", "\n", "# Data and Metadata directories\n", "# Metadata directories\n", "metadata_dir = os.path.join(base_dir, project_name + \"_metadata\")\n", "# images subdirectory\n", "metadata_images_dir = os.path.join(metadata_dir,\"images\")\n", "\n", "# Create directories if they don't already exist\n", "for d in [base_dir, input_data_dir, output_data_dir, output_images_dir, metadata_dir, metadata_images_dir]:\n", " if not os.path.exists(d):\n", " print(\"Creation of the\" , d, \"directory...\")\n", " os.makedirs(d)\n", " else :\n", " print(\"The\", d, \"directory already exists !\")\n", "\n", "os.chdir(input_data_dir)" ] }, { "cell_type": "code", "execution_count": 37, "id": "3396590c-e964-4053-be52-ef079e2d8e46", "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "base_dir : /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/\n", "input_data_dir : /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_qc_eda\n", "output_data_dir : /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_bs\n", "output_images_dir : /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_bs/images\n", "metadata_dir : /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_metadata\n", "metadata_images_dir : /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_metadata/images\n" ] } ], "source": [ "# Verify paths\n", "print('base_dir :', base_dir)\n", "print('input_data_dir :', input_data_dir)\n", "print('output_data_dir :', output_data_dir)\n", "print('output_images_dir :', output_images_dir)\n", "print('metadata_dir :', metadata_dir)\n", "print('metadata_images_dir :', metadata_images_dir)" ] }, { "cell_type": "markdown", "id": "8fce1113-2492-49a1-bb79-2553cb4a4fcd", "metadata": {}, "source": [ "## II.3. FILES" ] }, { "cell_type": "raw", "id": "41524daf-bcaa-4407-96aa-7a11a2dff993", "metadata": {}, "source": [ "Don't forget to put your data in the projname_data directory !" ] }, { "cell_type": "markdown", "id": "3d6665ba-cb34-4e75-bb77-085888c8af8b", "metadata": {}, "source": [ "### II.3.1. METADATA" ] }, { "cell_type": "code", "execution_count": 38, "id": "558e4ac8-3fd8-45fb-acdc-803baaf8a8a5", "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ "The /Users/harshithakolipaka/Downloads/wetransfer_data-zip_2024-05-17_1431/test_metadata/marker_intensity_metadata.csv file was imported for further analysis!\n", "WARNING: 'Marker metadata file' has the following unexpected item(s): \n", "['Exp']\n" ] }, { "data": { "text/html": [ "
\n", " | Round | \n", "Target | \n", "Exp | \n", "Channel | \n", "target_lower | \n", "full_column | \n", "marker | \n", "localisation | \n", "
---|---|---|---|---|---|---|---|---|
0 | \n", "R0 | \n", "AF488 | \n", "300 | \n", "c2 | \n", "af488 | \n", "AF488_Cell_Intensity_Average | \n", "AF488 | \n", "cell | \n", "
1 | \n", "R0 | \n", "AF488 | \n", "300 | \n", "c2 | \n", "af488 | \n", "AF488_Cytoplasm_Intensity_Average | \n", "AF488 | \n", "cytoplasm | \n", "
2 | \n", "R0 | \n", "AF488 | \n", "300 | \n", "c2 | \n", "af488 | \n", "AF488_Nucleus_Intensity_Average | \n", "AF488 | \n", "nucleus | \n", "
3 | \n", "R0 | \n", "AF555 | \n", "1500 | \n", "c3 | \n", "af555 | \n", "AF555_Cell_Intensity_Average | \n", "AF555 | \n", "cell | \n", "
4 | \n", "R0 | \n", "AF555 | \n", "1500 | \n", "c3 | \n", "af555 | \n", "AF555_Cytoplasm_Intensity_Average | \n", "AF555 | \n", "cytoplasm | \n", "
\n", " | Nuc_X | \n", "Sample_ID | \n", "Nucleus_Roundness | \n", "Nuc_Y_Inv | \n", "ROI_index | \n", "Cell_Size | \n", "Nucleus_Size | \n", "AF488_Cell_Intensity_Average | \n", "AF488_Cytoplasm_Intensity_Average | \n", "AF488_Nucleus_Intensity_Average | \n", "... | \n", "r8c2_Cytoplasm_Intensity_Average | \n", "r8c2_Nucleus_Intensity_Average | \n", "Sting_Cell_Intensity_Average | \n", "Sting_Cytoplasm_Intensity_Average | \n", "Sting_Nucleus_Intensity_Average | \n", "Vimentin_Cell_Intensity_Average | \n", "Vimentin_Cytoplasm_Intensity_Average | \n", "Vimentin_Nucleus_Intensity_Average | \n", "cell_type | \n", "cell_subtype | \n", "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID | \n", "\n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " |
DD3S3_Cell_0 | \n", "823.567871 | \n", "DD3S3.csv | \n", "0.835324 | \n", "15699.382812 | \n", "0 | \n", "281 | \n", "81 | \n", "1996.348755 | \n", "1883.150024 | \n", "2275.851807 | \n", "... | \n", "257.945007 | \n", "294.641968 | \n", "1358.562256 | \n", "1318.834961 | \n", "1456.654297 | \n", "2862.252686 | \n", "2464.334961 | \n", "3844.765381 | \n", "none | \n", "none | \n", "
DD3S3_Cell_1 | \n", "852.840027 | \n", "DD3S3.csv | \n", "0.523421 | \n", "15690.533203 | \n", "0 | \n", "200 | \n", "75 | \n", "2523.199951 | \n", "2450.087891 | \n", "2645.053223 | \n", "... | \n", "301.056000 | \n", "325.813324 | \n", "1856.005005 | \n", "1954.375977 | \n", "1692.053345 | \n", "3007.534912 | \n", "3135.496094 | \n", "2794.266602 | \n", "none | \n", "none | \n", "
DD3S3_Cell_2 | \n", "868.272705 | \n", "DD3S3.csv | \n", "0.686147 | \n", "15682.994141 | \n", "0 | \n", "425 | \n", "165 | \n", "2864.345947 | \n", "2765.046143 | \n", "3020.818115 | \n", "... | \n", "339.603851 | \n", "364.824249 | \n", "1969.552979 | \n", "2171.303955 | \n", "1651.642456 | \n", "1955.188232 | \n", "2099.076904 | \n", "1728.454590 | \n", "none | \n", "none | \n", "
DD3S3_Cell_4 | \n", "704.337280 | \n", "DD3S3.csv | \n", "0.757623 | \n", "15683.059570 | \n", "0 | \n", "418 | \n", "169 | \n", "3349.023926 | \n", "3018.883545 | \n", "3835.443848 | \n", "... | \n", "350.662659 | \n", "433.147919 | \n", "1398.476074 | \n", "1301.931763 | \n", "1540.721924 | \n", "1861.600464 | \n", "1678.666626 | \n", "2131.130127 | \n", "none | \n", "none | \n", "
DD3S3_Cell_5 | \n", "852.893799 | \n", "DD3S3.csv | \n", "0.714651 | \n", "15683.017578 | \n", "0 | \n", "201 | \n", "113 | \n", "2366.134277 | \n", "2088.715820 | \n", "2582.177002 | \n", "... | \n", "276.897736 | \n", "326.592926 | \n", "1328.602051 | \n", "1144.681763 | \n", "1471.831909 | \n", "1457.726318 | \n", "1205.852295 | \n", "1653.876099 | \n", "none | \n", "none | \n", "
5 rows × 117 columns
\n", "\n", " | Round | \n", "Target | \n", "Exp | \n", "Channel | \n", "target_lower | \n", "full_column | \n", "marker | \n", "localisation | \n", "
---|---|---|---|---|---|---|---|---|
0 | \n", "R0 | \n", "AF488 | \n", "300 | \n", "c2 | \n", "af488 | \n", "AF488_Cell_Intensity_Average | \n", "AF488 | \n", "cell | \n", "
1 | \n", "R0 | \n", "AF488 | \n", "300 | \n", "c2 | \n", "af488 | \n", "AF488_Cytoplasm_Intensity_Average | \n", "AF488 | \n", "cytoplasm | \n", "
2 | \n", "R0 | \n", "AF488 | \n", "300 | \n", "c2 | \n", "af488 | \n", "AF488_Nucleus_Intensity_Average | \n", "AF488 | \n", "nucleus | \n", "
3 | \n", "R0 | \n", "AF555 | \n", "1500 | \n", "c3 | \n", "af555 | \n", "AF555_Cell_Intensity_Average | \n", "AF555 | \n", "cell | \n", "
4 | \n", "R0 | \n", "AF555 | \n", "1500 | \n", "c3 | \n", "af555 | \n", "AF555_Cytoplasm_Intensity_Average | \n", "AF555 | \n", "cytoplasm | \n", "
... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "
103 | \n", "R8 | \n", "Sting | \n", "1000 | \n", "c4 | \n", "sting | \n", "Sting_Cytoplasm_Intensity_Average | \n", "Sting | \n", "cytoplasm | \n", "
104 | \n", "R8 | \n", "Sting | \n", "1000 | \n", "c4 | \n", "sting | \n", "Sting_Nucleus_Intensity_Average | \n", "Sting | \n", "nucleus | \n", "
105 | \n", "R8 | \n", "CD11b | \n", "1500 | \n", "c5 | \n", "cd11b | \n", "CD11b_Cell_Intensity_Average | \n", "CD11b | \n", "cell | \n", "
106 | \n", "R8 | \n", "CD11b | \n", "1500 | \n", "c5 | \n", "cd11b | \n", "CD11b_Cytoplasm_Intensity_Average | \n", "CD11b | \n", "cytoplasm | \n", "
107 | \n", "R8 | \n", "CD11b | \n", "1500 | \n", "c5 | \n", "cd11b | \n", "CD11b_Nucleus_Intensity_Average | \n", "CD11b | \n", "nucleus | \n", "
108 rows × 8 columns
\n", "\n", " | Nuc_X | \n", "Sample_ID | \n", "Nucleus_Roundness | \n", "Nuc_Y_Inv | \n", "ROI_index | \n", "Cell_Size | \n", "Nucleus_Size | \n", "AF488_Cell_Intensity_Average | \n", "AF488_Cytoplasm_Intensity_Average | \n", "AF488_Nucleus_Intensity_Average | \n", "... | \n", "r8c2_Nucleus_Intensity_Average | \n", "Sting_Cell_Intensity_Average | \n", "Sting_Cytoplasm_Intensity_Average | \n", "Sting_Nucleus_Intensity_Average | \n", "Vimentin_Cell_Intensity_Average | \n", "Vimentin_Cytoplasm_Intensity_Average | \n", "Vimentin_Nucleus_Intensity_Average | \n", "cell_type | \n", "cell_subtype | \n", "immune_checkpoint | \n", "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID | \n", "\n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " |
DD3S3_Cell_0 | \n", "823.567871 | \n", "DD3S3.csv | \n", "0.835324 | \n", "15699.382812 | \n", "0 | \n", "281 | \n", "81 | \n", "6.654496 | \n", "6.277167 | \n", "7.586173 | \n", "... | \n", "11.785679 | \n", "1.358562 | \n", "1.318835 | \n", "1.456654 | \n", "19.081685 | \n", "16.428900 | \n", "25.631769 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_1 | \n", "852.840027 | \n", "DD3S3.csv | \n", "0.523421 | \n", "15690.533203 | \n", "0 | \n", "200 | \n", "75 | \n", "8.410667 | \n", "8.166960 | \n", "8.816844 | \n", "... | \n", "13.032533 | \n", "1.856005 | \n", "1.954376 | \n", "1.692053 | \n", "20.050233 | \n", "20.903307 | \n", "18.628444 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_2 | \n", "868.272705 | \n", "DD3S3.csv | \n", "0.686147 | \n", "15682.994141 | \n", "0 | \n", "425 | \n", "165 | \n", "9.547820 | \n", "9.216820 | \n", "10.069394 | \n", "... | \n", "14.592970 | \n", "1.969553 | \n", "2.171304 | \n", "1.651642 | \n", "13.034588 | \n", "13.993846 | \n", "11.523031 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_4 | \n", "704.337280 | \n", "DD3S3.csv | \n", "0.757623 | \n", "15683.059570 | \n", "0 | \n", "418 | \n", "169 | \n", "11.163413 | \n", "10.062945 | \n", "12.784813 | \n", "... | \n", "17.325917 | \n", "1.398476 | \n", "1.301932 | \n", "1.540722 | \n", "12.410670 | \n", "11.191111 | \n", "14.207534 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_5 | \n", "852.893799 | \n", "DD3S3.csv | \n", "0.714651 | \n", "15683.017578 | \n", "0 | \n", "201 | \n", "113 | \n", "7.887114 | \n", "6.962386 | \n", "8.607257 | \n", "... | \n", "13.063717 | \n", "1.328602 | \n", "1.144682 | \n", "1.471832 | \n", "9.718175 | \n", "8.039015 | \n", "11.025841 | \n", "none | \n", "none | \n", "none | \n", "
... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "
DD3S2_Cell_91241 | \n", "11890.440430 | \n", "DD3S2.csv | \n", "0.654341 | \n", "1231.699951 | \n", "45 | \n", "185 | \n", "50 | \n", "11.222882 | \n", "11.690247 | \n", "9.961000 | \n", "... | \n", "13.310400 | \n", "2.154859 | \n", "2.332244 | \n", "1.675920 | \n", "11.001081 | \n", "11.442271 | \n", "9.809867 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91243 | \n", "11915.123047 | \n", "DD3S2.csv | \n", "0.854257 | \n", "1228.222168 | \n", "45 | \n", "203 | \n", "81 | \n", "10.506076 | \n", "10.907295 | \n", "9.901769 | \n", "... | \n", "13.592593 | \n", "2.356256 | \n", "2.432205 | \n", "2.241864 | \n", "10.545419 | \n", "10.825956 | \n", "10.122881 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91244 | \n", "11961.339844 | \n", "DD3S2.csv | \n", "0.651563 | \n", "1230.939941 | \n", "45 | \n", "157 | \n", "50 | \n", "11.337304 | \n", "11.769533 | \n", "10.412333 | \n", "... | \n", "13.680000 | \n", "2.176707 | \n", "2.105561 | \n", "2.328960 | \n", "11.364076 | \n", "11.828598 | \n", "10.370000 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91245 | \n", "11969.869141 | \n", "DD3S2.csv | \n", "0.764502 | \n", "1230.717407 | \n", "45 | \n", "115 | \n", "46 | \n", "10.039797 | \n", "10.513092 | \n", "9.329855 | \n", "... | \n", "12.852174 | \n", "2.346356 | \n", "2.526551 | \n", "2.076065 | \n", "11.523826 | \n", "12.672657 | \n", "9.800579 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91247 | \n", "11965.208984 | \n", "DD3S2.csv | \n", "0.873094 | \n", "1224.179077 | \n", "45 | \n", "146 | \n", "67 | \n", "10.225981 | \n", "10.388186 | \n", "10.034727 | \n", "... | \n", "13.613732 | \n", "2.212938 | \n", "2.229595 | \n", "2.193299 | \n", "16.504383 | \n", "21.886076 | \n", "10.158806 | \n", "none | \n", "none | \n", "none | \n", "
350554 rows × 118 columns
\n", "\n", " | Nuc_X | \n", "Sample_ID | \n", "Nucleus_Roundness | \n", "Nuc_Y_Inv | \n", "ROI_index | \n", "Cell_Size | \n", "Nucleus_Size | \n", "AF488_Cell_Intensity_Average | \n", "AF488_Cytoplasm_Intensity_Average | \n", "AF488_Nucleus_Intensity_Average | \n", "... | \n", "r8c2_Nucleus_Intensity_Average | \n", "Sting_Cell_Intensity_Average | \n", "Sting_Cytoplasm_Intensity_Average | \n", "Sting_Nucleus_Intensity_Average | \n", "Vimentin_Cell_Intensity_Average | \n", "Vimentin_Cytoplasm_Intensity_Average | \n", "Vimentin_Nucleus_Intensity_Average | \n", "cell_type | \n", "cell_subtype | \n", "immune_checkpoint | \n", "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID | \n", "\n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " |
DD3S3_Cell_0 | \n", "823.567871 | \n", "DD3S3.csv | \n", "0.835324 | \n", "15699.382812 | \n", "0 | \n", "281 | \n", "81 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "4.199506 | \n", "0.663407 | \n", "0.636738 | \n", "0.729255 | \n", "12.427189 | \n", "10.151733 | \n", "18.045597 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_1 | \n", "852.840027 | \n", "DD3S3.csv | \n", "0.523421 | \n", "15690.533203 | \n", "0 | \n", "200 | \n", "75 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "4.215689 | \n", "1.107392 | \n", "1.215437 | \n", "0.927316 | \n", "11.639566 | \n", "12.736348 | \n", "9.811600 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_2 | \n", "868.272705 | \n", "DD3S3.csv | \n", "0.686147 | \n", "15682.994141 | \n", "0 | \n", "425 | \n", "165 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "4.523576 | \n", "1.151564 | \n", "1.370796 | \n", "0.806107 | \n", "3.486768 | \n", "4.777026 | \n", "1.453637 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_4 | \n", "704.337280 | \n", "DD3S3.csv | \n", "0.757623 | \n", "15683.059570 | \n", "0 | \n", "418 | \n", "169 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "4.541104 | \n", "0.516323 | \n", "0.459996 | \n", "0.599314 | \n", "1.247257 | \n", "1.128166 | \n", "1.422721 | \n", "none | \n", "none | \n", "none | \n", "
DD3S3_Cell_5 | \n", "852.893799 | \n", "DD3S3.csv | \n", "0.714651 | \n", "15683.017578 | \n", "0 | \n", "201 | \n", "113 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "4.456460 | \n", "0.591222 | \n", "0.442303 | \n", "0.707195 | \n", "1.831061 | \n", "1.076629 | \n", "2.418584 | \n", "none | \n", "none | \n", "none | \n", "
... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "
DD3S2_Cell_91241 | \n", "11890.440430 | \n", "DD3S2.csv | \n", "0.654341 | \n", "1231.699951 | \n", "45 | \n", "185 | \n", "50 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "3.349400 | \n", "1.266964 | \n", "1.422560 | \n", "0.846853 | \n", "-0.221802 | \n", "-0.247975 | \n", "-0.151134 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91243 | \n", "11915.123047 | \n", "DD3S2.csv | \n", "0.854257 | \n", "1228.222168 | \n", "45 | \n", "203 | \n", "81 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "3.690824 | \n", "1.506736 | \n", "1.552194 | \n", "1.438268 | \n", "0.039343 | \n", "-0.081339 | \n", "0.221112 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91244 | \n", "11961.339844 | \n", "DD3S2.csv | \n", "0.651563 | \n", "1230.939941 | \n", "45 | \n", "157 | \n", "50 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "3.267667 | \n", "1.252032 | \n", "1.162981 | \n", "1.442600 | \n", "0.026772 | \n", "0.059065 | \n", "-0.042333 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91245 | \n", "11969.869141 | \n", "DD3S2.csv | \n", "0.764502 | \n", "1230.717407 | \n", "45 | \n", "115 | \n", "46 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "3.522319 | \n", "1.508861 | \n", "1.657759 | \n", "1.285514 | \n", "1.484028 | \n", "2.159565 | \n", "0.470724 | \n", "none | \n", "none | \n", "none | \n", "
DD3S2_Cell_91247 | \n", "11965.208984 | \n", "DD3S2.csv | \n", "0.873094 | \n", "1224.179077 | \n", "45 | \n", "146 | \n", "67 | \n", "0.0 | \n", "0.0 | \n", "0.0 | \n", "... | \n", "3.579005 | \n", "1.367290 | \n", "1.387004 | \n", "1.344045 | \n", "6.278402 | \n", "11.497890 | \n", "0.124080 | \n", "none | \n", "none | \n", "none | \n", "
350554 rows × 118 columns
\n", "