{ "cells": [ { "cell_type": "code", "execution_count": 1, "id": "6ffec984", "metadata": {}, "outputs": [], "source": [ "import pandas as pd\n", "markers = pd.read_csv('clean_markers.csv')" ] }, { "cell_type": "code", "execution_count": 2, "id": "efec0795", "metadata": {}, "outputs": [ { "data": { "text/html": [ "
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channel_numbercycle_numbermarker_nameFilterexcitation_wavelengthemission_wavelengthBandwidthch_indexCellProfilerDescriptionCellPaint-LikeCellHealthFirstRecommendationSecondRecommendation
010DNA_0DAPI4054454601Nuclei1111
121NWSGFP4885213810Procode0000
231VSVGRFP5615944320Procode0000
341FLAGCy56376987730Procode0000
452HSVGFP4885213810Procode0000
562CRFP5615944320Procode0000
672SCy56376987730Procode0000
783OllasGFP4885213810Procode0000
893GFAPRFP5615944320Glial Marker0000
9103NeuNCy56376987731Neuronal Marker, development1011
10114pRPS6GFP4885213811Ribosome, active translation1111
11124RANGAP1RFP5615944321Nuclear envelope protein1011
12134NFKBCy56376987731p650110
13145TOM20GFP4885213811Mito1011
14155LAMP1RFP5615944321Lysosome1011
151654HNECy56376987730Oxidative Stress Marker0100
16176TDP43GFP4885213811RNA binding protein, ALS0111
17186G3BP1Cy56376987731Stress Granules, ALS, HD0111
18197GM130GFP4885213811cis-golgi marker1010
19207CalnexinRFP5615944320ER, antibody1000
20217Golgin97Cy56376987731trans-golgi marker1010
21228SYTOGFP5145383811RNA, soma segmentation mask1011
22239ERGFP4885213811ER, cell paint dye1011
23249AGPRFP5615944321Actin, Golgi, Plasma Membrane1011
24259CatalaseCy56376987730Catalase antibody1000
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" ], "text/plain": [ " channel_number cycle_number marker_name Filter excitation_wavelength \\\n", "0 1 0 DNA_0 DAPI 405 \n", "1 2 1 NWS GFP 488 \n", "2 3 1 VSVG RFP 561 \n", "3 4 1 FLAG Cy5 637 \n", "4 5 2 HSV GFP 488 \n", "5 6 2 C RFP 561 \n", "6 7 2 S Cy5 637 \n", "7 8 3 Ollas GFP 488 \n", "8 9 3 GFAP RFP 561 \n", "9 10 3 NeuN Cy5 637 \n", "10 11 4 pRPS6 GFP 488 \n", "11 12 4 RANGAP1 RFP 561 \n", "12 13 4 NFKB Cy5 637 \n", "13 14 5 TOM20 GFP 488 \n", "14 15 5 LAMP1 RFP 561 \n", "15 16 5 4HNE Cy5 637 \n", "16 17 6 TDP43 GFP 488 \n", "17 18 6 G3BP1 Cy5 637 \n", "18 19 7 GM130 GFP 488 \n", "19 20 7 Calnexin RFP 561 \n", "20 21 7 Golgin97 Cy5 637 \n", "21 22 8 SYTO GFP 514 \n", "22 23 9 ER GFP 488 \n", "23 24 9 AGP RFP 561 \n", "24 25 9 Catalase Cy5 637 \n", "\n", " emission_wavelength Bandwidth ch_index CellProfiler \\\n", "0 445 46 0 1 \n", "1 521 38 1 0 \n", "2 594 43 2 0 \n", "3 698 77 3 0 \n", "4 521 38 1 0 \n", "5 594 43 2 0 \n", "6 698 77 3 0 \n", "7 521 38 1 0 \n", "8 594 43 2 0 \n", "9 698 77 3 1 \n", "10 521 38 1 1 \n", "11 594 43 2 1 \n", "12 698 77 3 1 \n", "13 521 38 1 1 \n", "14 594 43 2 1 \n", "15 698 77 3 0 \n", "16 521 38 1 1 \n", "17 698 77 3 1 \n", "18 521 38 1 1 \n", "19 594 43 2 0 \n", "20 698 77 3 1 \n", "21 538 38 1 1 \n", "22 521 38 1 1 \n", "23 594 43 2 1 \n", "24 698 77 3 0 \n", "\n", " Description CellPaint-Like CellHealth \\\n", "0 Nuclei 1 1 \n", "1 Procode 0 0 \n", "2 Procode 0 0 \n", "3 Procode 0 0 \n", "4 Procode 0 0 \n", "5 Procode 0 0 \n", "6 Procode 0 0 \n", "7 Procode 0 0 \n", "8 Glial Marker 0 0 \n", "9 Neuronal Marker, development 1 0 \n", "10 Ribosome, active translation 1 1 \n", "11 Nuclear envelope protein 1 0 \n", "12 p65 0 1 \n", "13 Mito 1 0 \n", "14 Lysosome 1 0 \n", "15 Oxidative Stress Marker 0 1 \n", "16 RNA binding protein, ALS 0 1 \n", "17 Stress Granules, ALS, HD 0 1 \n", "18 cis-golgi marker 1 0 \n", "19 ER, antibody 1 0 \n", "20 trans-golgi marker 1 0 \n", "21 RNA, soma segmentation mask 1 0 \n", "22 ER, cell paint dye 1 0 \n", "23 Actin, Golgi, Plasma Membrane 1 0 \n", "24 Catalase antibody 1 0 \n", "\n", " FirstRecommendation SecondRecommendation \n", "0 1 1 \n", "1 0 0 \n", "2 0 0 \n", "3 0 0 \n", "4 0 0 \n", "5 0 0 \n", "6 0 0 \n", "7 0 0 \n", "8 0 0 \n", "9 1 1 \n", "10 1 1 \n", "11 1 1 \n", "12 1 0 \n", "13 1 1 \n", "14 1 1 \n", "15 0 0 \n", "16 1 1 \n", "17 1 1 \n", "18 1 0 \n", "19 0 0 \n", "20 1 0 \n", "21 1 1 \n", "22 1 1 \n", "23 1 1 \n", "24 0 0 " ] }, "execution_count": 2, "metadata": {}, "output_type": "execute_result" } ], "source": [ "markers" ] }, { "cell_type": "code", "execution_count": null, "id": "ecd1ae62", "metadata": {}, "outputs": [], "source": [] } ], "metadata": { "kernelspec": { "display_name": "Python 3 (ipykernel)", "language": "python", "name": "python3" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 3 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.8.0" } }, "nbformat": 4, "nbformat_minor": 5 }