{ "cells": [ { "cell_type": "code", "execution_count": 179, "metadata": {}, "outputs": [], "source": [ "import os\n", "import glob\n", "import pickle\n", "import pandas as pd\n", "import numpy as np\n", "\n", "from dask.diagnostics import ProgressBar\n", "\n", "from arboreto.utils import load_tf_names\n", "from arboreto.algo import grnboost2\n", "\n", "from ctxcore.rnkdb import FeatherRankingDatabase as RankingDatabase\n", "from pyscenic.utils import modules_from_adjacencies, load_motifs\n", "from pyscenic.prune import prune2df, df2regulons\n", "from pyscenic.aucell import aucell\n", "\n", "import seaborn as sns\n" ] }, { "cell_type": "code", "execution_count": 180, "metadata": {}, "outputs": [], "source": [ "import matplotlib.pyplot as plt" ] }, { "cell_type": "code", "execution_count": 181, "metadata": {}, "outputs": [], "source": [ "import pickle as pkl" ] }, { "cell_type": "code", "execution_count": 182, "metadata": {}, "outputs": [], "source": [ "def size2(a,b):\n", " plt.rcParams['figure.figsize'] = (a,b)\n", "def size(a,b):\n", " plt.gcf().set_size_inches(a,b)\n", "\n", "def pklrd(filename):\n", " with open(filename, \"rb\") as file:\n", " data = pkl.load(file)\n", " return data\n", "\n", "def pklwr(data, filename):\n", " with open(filename, \"wb\") as file:\n", " pkl.dump(data, file)\n", "\n", "def save(name):\n", " scjp.save_fig(version,'Fig4_'+name,fig_folder='./Fig4')\n", "\n", "\n", "plt.rcParams['figure.dpi'] = 300" ] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [] }, { "cell_type": "code", "execution_count": 183, "metadata": {}, "outputs": [], "source": [ "## tf gene list from http://humantfs.ccbr.utoronto.ca/download.php\n", "## ranking DB, motif from ## https://resources.aertslab.org/cistarget/\n" ] }, { "cell_type": "code", "execution_count": 184, "metadata": {}, "outputs": [], "source": [ "import anndata as ad" ] }, { "cell_type": "code", "execution_count": 185, "metadata": {}, "outputs": [], "source": [ "canrawt = ad.read_h5ad('/home/srkim/write/PCI01.v43.canrawt_final_02.h5ad')" ] }, { "cell_type": "code", "execution_count": null, "metadata": {}, "outputs": [], "source": [] }, { "cell_type": "code", "execution_count": 186, "metadata": {}, "outputs": [], "source": [ "auc_mtx = pd.read_csv('~/pyscenic_canrawt_filtered_mtx.csv', index_col=0)" ] }, { "cell_type": "code", "execution_count": 187, "metadata": {}, "outputs": [], "source": [ "from pyscenic.rss import regulon_specificity_scores\n", "from pyscenic.plotting import plot_rss\n", "import matplotlib.pyplot as plt\n", "from adjustText import adjust_text\n", "import seaborn as sns\n", "from pyscenic.binarization import binarize" ] }, { "cell_type": "code", "execution_count": 188, "metadata": {}, "outputs": [ { "data": { "text/html": [ "
\n", " | AR(+) | \n", "ATF3(+) | \n", "BACH1(+) | \n", "BCL6(+) | \n", "BHLHE40(+) | \n", "CREB3L1(+) | \n", "CREB3L4(+) | \n", "CREB5(+) | \n", "DDIT3(+) | \n", "EGR1(+) | \n", "... | \n", "SNAI1(+) | \n", "SOX4(+) | \n", "SOX5(+) | \n", "SOX6(+) | \n", "SPDEF(+) | \n", "STAT2(+) | \n", "TCF4(+) | \n", "TP63(+) | \n", "ZEB1(+) | \n", "ZNF233(+) | \n", "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Cell | \n", "\n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " |
GEX_45_MM_AAACGGGAGACAAGCC-1-0 | \n", "0.309603 | \n", "0.009364 | \n", "0.002260 | \n", "0.023236 | \n", "0.000000 | \n", "0.000000 | \n", "0.011862 | \n", "0.055846 | \n", "0.008006 | \n", "0.007603 | \n", "... | \n", "0.0 | \n", "0.015603 | \n", "0.000000 | \n", "0.101619 | \n", "0.000000 | \n", "0.015038 | \n", "0.000000 | \n", "0.043962 | \n", "0.000000 | \n", "0.000000 | \n", "
GEX_45_MM_AAAGATGAGCTCCTCT-1-0 | \n", "0.161941 | \n", "0.012431 | \n", "0.007412 | \n", "0.044666 | \n", "0.000000 | \n", "0.000000 | \n", "0.014205 | \n", "0.028575 | \n", "0.036296 | \n", "0.006231 | \n", "... | \n", "0.0 | \n", "0.010182 | \n", "0.000000 | \n", "0.037978 | \n", "0.000000 | \n", "0.051826 | \n", "0.016296 | \n", "0.168003 | \n", "0.000051 | \n", "0.000000 | \n", "
GEX_45_MM_AAAGATGTCGCTAGCG-1-0 | \n", "0.082826 | \n", "0.005493 | \n", "0.001116 | \n", "0.003092 | \n", "0.000000 | \n", "0.000000 | \n", "0.006374 | \n", "0.050414 | \n", "0.002388 | \n", "0.000000 | \n", "... | \n", "0.0 | \n", "0.000104 | \n", "0.000000 | \n", "0.025342 | \n", "0.000000 | \n", "0.001374 | \n", "0.008448 | \n", "0.005956 | \n", "0.000000 | \n", "0.000000 | \n", "
GEX_45_MM_AAAGCAAAGGCGACAT-1-0 | \n", "0.084580 | \n", "0.007247 | \n", "0.003033 | \n", "0.008250 | \n", "0.005695 | \n", "0.007685 | \n", "0.006111 | \n", "0.066095 | \n", "0.032299 | \n", "0.000000 | \n", "... | \n", "0.0 | \n", "0.000589 | \n", "0.000000 | \n", "0.035098 | \n", "0.000000 | \n", "0.001811 | \n", "0.000000 | \n", "0.001970 | \n", "0.013476 | \n", "0.000000 | \n", "
GEX_45_MM_AAAGCAAAGGGTCGAT-1-0 | \n", "0.040529 | \n", "0.013412 | \n", "0.010617 | \n", "0.052777 | \n", "0.006005 | \n", "0.005609 | \n", "0.015350 | \n", "0.007385 | \n", "0.017359 | \n", "0.008721 | \n", "... | \n", "0.0 | \n", "0.014779 | \n", "0.000000 | \n", "0.028453 | \n", "0.000000 | \n", "0.065320 | \n", "0.004113 | \n", "0.071205 | \n", "0.040882 | \n", "0.000000 | \n", "
... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "... | \n", "
5_GEX_9_TTTGTCAAGAGAACAG-1-1 | \n", "0.000000 | \n", "0.008593 | \n", "0.022215 | \n", "0.066068 | \n", "0.014404 | \n", "0.000000 | \n", "0.006128 | \n", "0.023016 | \n", "0.013067 | \n", "0.008535 | \n", "... | \n", "0.0 | \n", "0.006451 | \n", "0.005515 | \n", "0.027117 | \n", "0.000000 | \n", "0.050422 | \n", "0.000000 | \n", "0.018161 | \n", "0.286356 | \n", "0.000000 | \n", "
5_GEX_9_TTTGTCAAGATCTGCT-1-1 | \n", "0.000000 | \n", "0.013548 | \n", "0.024009 | \n", "0.011098 | \n", "0.024810 | \n", "0.022153 | \n", "0.048144 | \n", "0.010927 | \n", "0.006832 | \n", "0.006156 | \n", "... | \n", "0.0 | \n", "0.004127 | \n", "0.014181 | \n", "0.046673 | \n", "0.078274 | \n", "0.009050 | \n", "0.000000 | \n", "0.030500 | \n", "0.000000 | \n", "0.000000 | \n", "
5_GEX_9_TTTGTCAAGCGTAATA-1-1 | \n", "0.000000 | \n", "0.011238 | \n", "0.029036 | \n", "0.086111 | \n", "0.021217 | \n", "0.002209 | \n", "0.004596 | \n", "0.019867 | \n", "0.014171 | \n", "0.001121 | \n", "... | \n", "0.0 | \n", "0.015314 | \n", "0.016151 | \n", "0.000000 | \n", "0.007810 | \n", "0.100397 | \n", "0.000000 | \n", "0.063747 | \n", "0.000000 | \n", "0.000000 | \n", "
5_GEX_9_TTTGTCACAGCTTAAC-1-1 | \n", "0.089858 | \n", "0.009337 | \n", "0.012473 | \n", "0.089268 | \n", "0.000000 | \n", "0.001256 | \n", "0.020073 | \n", "0.013874 | \n", "0.005823 | \n", "0.021911 | \n", "... | \n", "0.0 | \n", "0.011447 | \n", "0.055287 | \n", "0.000000 | \n", "0.000000 | \n", "0.040609 | \n", "0.016442 | \n", "0.020375 | \n", "0.071544 | \n", "0.000000 | \n", "
5_GEX_9_TTTGTCACAGGTCCAC-1-1 | \n", "0.000000 | \n", "0.014738 | \n", "0.014347 | \n", "0.013610 | \n", "0.012568 | \n", "0.155012 | \n", "0.363638 | \n", "0.004549 | \n", "0.007231 | \n", "0.000000 | \n", "... | \n", "0.0 | \n", "0.000631 | \n", "0.114996 | \n", "0.000000 | \n", "0.354062 | \n", "0.026340 | \n", "0.004493 | \n", "0.009346 | \n", "0.000000 | \n", "0.001873 | \n", "
10944 rows × 72 columns
\n", "\n", " | AR(+) | \n", "ATF3(+) | \n", "BACH1(+) | \n", "BCL6(+) | \n", "BHLHE40(+) | \n", "CREB3L1(+) | \n", "CREB3L4(+) | \n", "CREB5(+) | \n", "DDIT3(+) | \n", "EGR1(+) | \n", "... | \n", "SNAI1(+) | \n", "SOX4(+) | \n", "SOX5(+) | \n", "SOX6(+) | \n", "SPDEF(+) | \n", "STAT2(+) | \n", "TCF4(+) | \n", "TP63(+) | \n", "ZEB1(+) | \n", "ZNF233(+) | \n", "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Ep_FXYD2 | \n", "0.388965 | \n", "0.225306 | \n", "0.190530 | \n", "0.200628 | \n", "0.177613 | \n", "0.180385 | \n", "0.184671 | \n", "0.301325 | \n", "0.206436 | \n", "0.200666 | \n", "... | \n", "0.171640 | \n", "0.195748 | \n", "0.180485 | \n", "0.259947 | \n", "0.172367 | \n", "0.188897 | \n", "0.197513 | \n", "0.195325 | \n", "0.173127 | \n", "0.201322 | \n", "
Ep_PIFO | \n", "0.195639 | \n", "0.211185 | \n", "0.217519 | \n", "0.251494 | \n", "0.209326 | \n", "0.177941 | \n", "0.182825 | \n", "0.201914 | \n", "0.196327 | \n", "0.209717 | \n", "... | \n", "0.175180 | \n", "0.196737 | \n", "0.186984 | \n", "0.208077 | \n", "0.177509 | \n", "0.268071 | \n", "0.202869 | \n", "0.287377 | \n", "0.192865 | \n", "0.180070 | \n", "
Ep_VGLL1 | \n", "0.260881 | \n", "0.306768 | \n", "0.359137 | \n", "0.315239 | \n", "0.316010 | \n", "0.235239 | \n", "0.223727 | \n", "0.300136 | \n", "0.333696 | \n", "0.335576 | \n", "... | \n", "0.235361 | \n", "0.402097 | \n", "0.216193 | \n", "0.292679 | \n", "0.205202 | \n", "0.323815 | \n", "0.284225 | \n", "0.334517 | \n", "0.257349 | \n", "0.256051 | \n", "
Ep_TRIM54 | \n", "0.296020 | \n", "0.341267 | \n", "0.328930 | \n", "0.273868 | \n", "0.319524 | \n", "0.420222 | \n", "0.277714 | \n", "0.382003 | \n", "0.376023 | \n", "0.300165 | \n", "... | \n", "0.308438 | \n", "0.331628 | \n", "0.428012 | \n", "0.385147 | \n", "0.309644 | \n", "0.301728 | \n", "0.306471 | \n", "0.323565 | \n", "0.239445 | \n", "0.364688 | \n", "
Ep_KRT6A | \n", "0.233046 | \n", "0.264136 | \n", "0.297714 | \n", "0.356530 | \n", "0.312752 | \n", "0.189239 | \n", "0.218941 | \n", "0.271644 | \n", "0.274587 | \n", "0.267085 | \n", "... | \n", "0.190476 | \n", "0.275087 | \n", "0.206127 | \n", "0.252084 | \n", "0.180924 | \n", "0.354526 | \n", "0.352670 | \n", "0.324958 | \n", "0.417147 | \n", "0.201637 | \n", "
Ep_ZBED6 | \n", "0.214634 | \n", "0.223485 | \n", "0.274827 | \n", "0.253735 | \n", "0.242114 | \n", "0.201480 | \n", "0.185965 | \n", "0.246434 | \n", "0.229304 | \n", "0.236999 | \n", "... | \n", "0.200658 | \n", "0.240373 | \n", "0.231863 | \n", "0.274186 | \n", "0.185829 | \n", "0.237641 | \n", "0.236060 | \n", "0.230181 | \n", "0.212336 | \n", "0.250250 | \n", "
Ep_Base | \n", "0.218260 | \n", "0.330624 | \n", "0.360586 | \n", "0.377071 | \n", "0.370101 | \n", "0.256636 | \n", "0.244028 | \n", "0.295801 | \n", "0.327750 | \n", "0.342512 | \n", "... | \n", "0.214682 | \n", "0.350988 | \n", "0.283101 | \n", "0.264846 | \n", "0.231292 | \n", "0.364289 | \n", "0.315366 | \n", "0.312445 | \n", "0.290148 | \n", "0.209854 | \n", "
Ep_MSMB | \n", "0.213372 | \n", "0.356227 | \n", "0.231506 | \n", "0.216466 | \n", "0.229168 | \n", "0.467505 | \n", "0.593784 | \n", "0.269832 | \n", "0.254894 | \n", "0.267536 | \n", "... | \n", "0.177152 | \n", "0.209871 | \n", "0.216024 | \n", "0.239657 | \n", "0.527115 | \n", "0.219133 | \n", "0.194410 | \n", "0.220586 | \n", "0.179029 | \n", "0.204828 | \n", "
8 rows × 72 columns
\n", "\n", " | AR(+) | \n", "ATF3(+) | \n", "BACH1(+) | \n", "BCL6(+) | \n", "BHLHE40(+) | \n", "CREB3L1(+) | \n", "CREB3L4(+) | \n", "CREB5(+) | \n", "DDIT3(+) | \n", "EGR1(+) | \n", "... | \n", "SNAI1(+) | \n", "SOX4(+) | \n", "SOX5(+) | \n", "SOX6(+) | \n", "SPDEF(+) | \n", "STAT2(+) | \n", "TCF4(+) | \n", "TP63(+) | \n", "ZEB1(+) | \n", "ZNF233(+) | \n", "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Ep_FXYD2 | \n", "73.853036 | \n", "1.114975 | \n", "-19.8115 | \n", "-12.500436 | \n", "-18.528362 | \n", "-13.61192 | \n", "-8.098529 | \n", "69.319647 | \n", "-7.907638 | \n", "-7.948865 | \n", "... | \n", "-6.027041 | \n", "-12.680978 | \n", "-8.848136 | \n", "22.390709 | \n", "-10.081475 | \n", "-20.267605 | \n", "-7.387333 | \n", "-11.980214 | \n", "-10.554624 | \n", "-2.378117 | \n", "
Ep_PIFO | \n", "-5.973529 | \n", "-13.125871 | \n", "-10.675191 | \n", "10.766147 | \n", "-9.645161 | \n", "-16.837975 | \n", "-10.019894 | \n", "-17.666724 | \n", "-16.36806 | \n", "-7.99298 | \n", "... | \n", "-6.169635 | \n", "-16.978053 | \n", "-9.229117 | \n", "-9.328968 | \n", "-10.591779 | \n", "22.827962 | \n", "-8.358187 | \n", "28.731994 | \n", "-7.449483 | \n", "-8.826533 | \n", "
Ep_VGLL1 | \n", "1.223111 | \n", "1.589377 | \n", "31.992238 | \n", "4.654621 | \n", "7.614291 | \n", "-18.898784 | \n", "-14.485431 | \n", "-2.445519 | \n", "15.268415 | \n", "19.710925 | \n", "... | \n", "3.372175 | \n", "51.294881 | \n", "-13.379646 | \n", "-0.762432 | \n", "-14.665357 | \n", "9.528974 | \n", "0.487247 | \n", "19.126396 | \n", "-4.556643 | \n", "1.489811 | \n", "
Ep_TRIM54 | \n", "0.792764 | \n", "-10.205617 | \n", "-19.503834 | \n", "-38.992299 | \n", "-10.849221 | \n", "22.848613 | \n", "-14.41601 | \n", "9.643804 | \n", "8.562352 | \n", "-13.747384 | \n", "... | \n", "19.557156 | \n", "-11.72822 | \n", "34.952035 | \n", "19.040871 | \n", "-1.370008 | \n", "-29.360534 | \n", "-4.345886 | \n", "-12.582282 | \n", "-17.764333 | \n", "27.725785 | \n", "
Ep_KRT6A | \n", "-9.513275 | \n", "-25.167148 | \n", "-10.237718 | \n", "22.731625 | \n", "3.983484 | \n", "-31.989678 | \n", "-16.150391 | \n", "-19.95731 | \n", "-10.682488 | \n", "-12.719774 | \n", "... | \n", "-9.19882 | \n", "-12.441589 | \n", "-16.698839 | \n", "-17.989251 | \n", "-20.632504 | \n", "21.824079 | \n", "19.293779 | \n", "6.73512 | \n", "48.859822 | \n", "-13.954431 | \n", "
Ep_ZBED6 | \n", "-1.922975 | \n", "-8.766018 | \n", "25.949357 | \n", "9.602631 | \n", "3.495961 | \n", "-11.682484 | \n", "-10.295551 | \n", "4.653797 | \n", "-3.613779 | \n", "2.116372 | \n", "... | \n", "-0.685113 | \n", "1.937398 | \n", "4.411287 | \n", "20.628104 | \n", "-9.669867 | \n", "-0.668157 | \n", "2.845847 | \n", "-3.020064 | \n", "-2.50314 | \n", "9.234646 | \n", "
Ep_MSMB | \n", "-9.035171 | \n", "46.538366 | \n", "-25.669135 | \n", "-29.002904 | \n", "-16.36931 | \n", "95.88062 | \n", "164.092813 | \n", "-5.829087 | \n", "-10.142274 | \n", "-0.368031 | \n", "... | \n", "-9.099258 | \n", "-27.501054 | \n", "-9.639122 | \n", "-12.473322 | \n", "104.39429 | \n", "-31.995369 | \n", "-21.927712 | \n", "-22.339022 | \n", "-17.736027 | \n", "-8.636614 | \n", "
7 rows × 72 columns
\n", "\n", " | Ep_FXYD2 | \n", "Ep_PIFO | \n", "Ep_VGLL1 | \n", "Ep_TRIM54 | \n", "Ep_KRT6A | \n", "Ep_ZBED6 | \n", "Ep_MSMB | \n", "
---|---|---|---|---|---|---|---|
NR5A2(+) | \n", "111.005016 | \n", "-10.578198 | \n", "-14.321429 | \n", "6.871851 | \n", "-17.327948 | \n", "-4.498371 | \n", "-0.594094 | \n", "
PBX3(+) | \n", "81.003605 | \n", "-10.114844 | \n", "-12.64767 | \n", "-11.671898 | \n", "3.50761 | \n", "-5.721162 | \n", "4.825338 | \n", "
AR(+) | \n", "73.853036 | \n", "-5.973529 | \n", "1.223111 | \n", "0.792764 | \n", "-9.513275 | \n", "-1.922975 | \n", "-9.035171 | \n", "
JUN(+) | \n", "70.060493 | \n", "-18.872157 | \n", "1.982148 | \n", "5.092525 | \n", "-33.114898 | \n", "-1.511761 | \n", "8.67822 | \n", "
CREB5(+) | \n", "69.319647 | \n", "-17.666724 | \n", "-2.445519 | \n", "9.643804 | \n", "-19.95731 | \n", "4.653797 | \n", "-5.829087 | \n", "
FOSB(+) | \n", "42.257186 | \n", "-16.572385 | \n", "-4.383368 | \n", "4.180887 | \n", "-27.339143 | \n", "0.653572 | \n", "10.954352 | \n", "
JUNB(+) | \n", "30.789576 | \n", "-4.829299 | \n", "-18.573872 | \n", "-20.200318 | \n", "13.815355 | \n", "-7.117866 | \n", "-13.014554 | \n", "
HNF1B(+) | \n", "24.206903 | \n", "-18.874111 | \n", "-15.69572 | \n", "63.360471 | \n", "-34.898897 | \n", "8.418233 | \n", "-5.648267 | \n", "
MEIS2(+) | \n", "22.870567 | \n", "-9.9129 | \n", "-2.513198 | \n", "31.750365 | \n", "-25.766512 | \n", "3.737336 | \n", "-14.256965 | \n", "
SOX6(+) | \n", "22.390709 | \n", "-9.328968 | \n", "-0.762432 | \n", "19.040871 | \n", "-17.989251 | \n", "20.628104 | \n", "-12.473322 | \n", "
\n", " | AR(+) | \n", "ATF3(+) | \n", "BACH1(+) | \n", "BCL6(+) | \n", "BHLHE40(+) | \n", "CREB3L1(+) | \n", "CREB3L4(+) | \n", "CREB5(+) | \n", "DDIT3(+) | \n", "EGR1(+) | \n", "... | \n", "SNAI1(+) | \n", "SOX4(+) | \n", "SOX5(+) | \n", "SOX6(+) | \n", "SPDEF(+) | \n", "STAT2(+) | \n", "TCF4(+) | \n", "TP63(+) | \n", "ZEB1(+) | \n", "ZNF233(+) | \n", "
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Cell | \n", "\n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " | \n", " |
GEX_45_MM_AAACGGGAGACAAGCC-1-0 | \n", "1 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "... | \n", "0 | \n", "0 | \n", "0 | \n", "1 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "
GEX_45_MM_AAAGATGAGCTCCTCT-1-0 | \n", "1 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "... | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "1 | \n", "0 | \n", "0 | \n", "
GEX_45_MM_AAAGATGTCGCTAGCG-1-0 | \n", "1 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "... | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "
GEX_45_MM_AAAGCAAAGGCGACAT-1-0 | \n", "1 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "... | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "
GEX_45_MM_AAAGCAAAGGGTCGAT-1-0 | \n", "0 | \n", "0 | \n", "0 | \n", "1 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "... | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "0 | \n", "1 | \n", "0 | \n", "
5 rows × 72 columns
\n", "