Single-cell UMAP explorer
Scatter2D graphs are a fundamental visualization tool used to display the relationship between two numerical variables. Each data point is represented as a dot on a two-dimensional plane, where the x-coordinate and y-coordinate correspond to the values of the two variables. This allows for quick identification of trends, clusters, and outliers in the data. Applications range from scientific data analysis to business intelligence, making them highly versatile. Creating effective Scatter2D graphs involves careful consideration of axis scaling, labeling, and color-coding. Highlighting specific data points or regions can improve understanding. Interactive Scatter2D plots further enhance exploration, allowing users to zoom, pan, and select individual data points for detailed examination. Choosing appropriate visualization tools greatly impacts the ability to draw meaningful insights from data.
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var data =
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var config = {
"graphType" : "Scatter2D",
"title" : "Single-cell UMAP explorer",
"subtitle" : "3,000 cells, 8 annotated cell types",
"xAxis" : [
"UMAP-1"
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"yAxis" : [
"UMAP-2"
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"xAxisTitle" : "UMAP-1",
"yAxisTitle" : "UMAP-2",
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}
}
// Create the configuration for the graph
var config = {
"graphType" : "Scatter2D",
"title" : "Single-cell UMAP explorer",
"subtitle" : "3,000 cells, 8 annotated cell types",
"xAxis" : [
"UMAP-1"
],
"yAxis" : [
"UMAP-2"
],
"xAxisTitle" : "UMAP-1",
"yAxisTitle" : "UMAP-2",
"colorBy" : "CellType",
"dataPointSize" : 4,
"backgroundType" : "panel",
"panelBackgroundColor" : "rgb(245,245,245)",
"xAxisGridMajorColor" : "rgb(255,255,255)",
"yAxisGridMajorColor" : "rgb(255,255,255)",
"legendBox" : true,
"legendBackgroundColor" : "rgb(255,255,255)",
"axisTickScaleFontFactor" : 0.8
}
// Event used to create graph (optional)
var events = false
// Call the CanvasXpress function to create the graph
var cX = new CanvasXpress("canvasId", data, config, events);
</script>
</body>
</html>
library(canvasXpress)
y=read.table("https://www.canvasxpress.org/data/r/cX-scatter2d20-dat.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
z=read.table("https://www.canvasxpress.org/data/r/cX-scatter2d20-var.txt", header=TRUE, sep="\t", quote="", row.names=1, fill=TRUE, check.names=FALSE, stringsAsFactors=FALSE)
canvasXpress(
data=y,
varAnnot=z,
axisTickScaleFontFactor=0.8,
backgroundType="panel",
colorBy="CellType",
dataPointSize=4,
graphType="Scatter2D",
legendBackgroundColor="rgb(255,255,255)",
legendBox=TRUE,
panelBackgroundColor="rgb(245,245,245)",
subtitle="3,000 cells, 8 annotated cell types",
title="Single-cell UMAP explorer",
xAxis=list("UMAP-1"),
xAxisGridMajorColor="rgb(255,255,255)",
xAxisTitle="UMAP-1",
yAxis=list("UMAP-2"),
yAxisGridMajorColor="rgb(255,255,255)",
yAxisTitle="UMAP-2"
)
from canvasxpress.canvas import CanvasXpress
from canvasxpress.plot import show_in_browser
if __name__ == "__main__":
# Define the chart with its data and configuration
chart: CanvasXpress = CanvasXpress(
render_to = "scatter2d20",
data = {
"y": {
"vars": ["Cell0001", "Cell0002", "Cell0003", "Cell0004", "Cell0005", "Cell0006", "Cell0007", "Cell0008", "Cell0009", "Cell0010", "Cell0011", "Cell0012", "Cell0013", "Cell0014", "Cell0015", "Cell0016", "Cell0017", "Cell0018", "Cell0019", "Cell0020", "Cell0021", "Cell0022", "Cell0023", "Cell0024", "Cell0025", "Cell0026", "Cell0027", "Cell0028", "Cell0029", "Cell0030", "Cell0031", "Cell0032", "Cell0033", "Cell0034", "Cell0035", "Cell0036", "Cell0037", "Cell0038", "Cell0039", "Cell0040", "Cell0041", "Cell0042", "Cell0043", "Cell0044", "Cell0045", "Cell0046", "Cell0047", "Cell0048", "Cell0049", "Cell0050", "Cell0051", "Cell0052", "Cell0053", "Cell0054", "Cell0055", "Cell0056", "Cell0057", "Cell0058", "Cell0059", "Cell0060", "Cell0061", "Cell0062", "Cell0063", "Cell0064", "Cell0065", "Cell0066", "Cell0067", "Cell0068", "Cell0069", "Cell0070", "Cell0071", "Cell0072", "Cell0073", "Cell0074", "Cell0075", "Cell0076", "Cell0077", "Cell0078", "Cell0079", "Cell0080", "Cell0081", "Cell0082", "Cell0083", "Cell0084", "Cell0085", "Cell0086", "Cell0087", "Cell0088", "Cell0089", "Cell0090", "Cell0091", "Cell0092", "Cell0093", "Cell0094", "Cell0095", "Cell0096", "Cell0097", "Cell0098", "Cell0099", "Cell0100", "Cell0101", "Cell0102", "Cell0103", "Cell0104", "Cell0105", "Cell0106", "Cell0107", "Cell0108", "Cell0109", "Cell0110", "Cell0111", "Cell0112", "Cell0113", "Cell0114", "Cell0115", "Cell0116", "Cell0117", "Cell0118", "Cell0119", "Cell0120", "Cell0121", "Cell0122", "Cell0123", "Cell0124", "Cell0125", "Cell0126", "Cell0127", "Cell0128", "Cell0129", "Cell0130", "Cell0131", "Cell0132", "Cell0133", "Cell0134", "Cell0135", "Cell0136", "Cell0137", "Cell0138", "Cell0139", "Cell0140", "Cell0141", "Cell0142", "Cell0143", "Cell0144", "Cell0145", "Cell0146", "Cell0147", "Cell0148", "Cell0149", "Cell0150", "Cell0151", "Cell0152", "Cell0153", "Cell0154", "Cell0155", "Cell0156", "Cell0157", "Cell0158", "Cell0159", "Cell0160", "Cell0161", "Cell0162", "Cell0163", "Cell0164", "Cell0165", "Cell0166", "Cell0167", "Cell0168", "Cell0169", "Cell0170", "Cell0171", "Cell0172", "Cell0173", "Cell0174", "Cell0175", "Cell0176", "Cell0177", "Cell0178", "Cell0179", "Cell0180", "Cell0181", "Cell0182", "Cell0183", "Cell0184", "Cell0185", "Cell0186", "Cell0187", "Cell0188", "Cell0189", "Cell0190", "Cell0191", "Cell0192", "Cell0193", "Cell0194", "Cell0195", "Cell0196", "Cell0197", "Cell0198", "Cell0199", "Cell0200", "Cell0201", "Cell0202", "Cell0203", "Cell0204", "Cell0205", "Cell0206", "Cell0207", "Cell0208", "Cell0209", "Cell0210", "Cell0211", "Cell0212", "Cell0213", "Cell0214", "Cell0215", "Cell0216", "Cell0217", "Cell0218", "Cell0219", "Cell0220", "Cell0221", "Cell0222", "Cell0223", "Cell0224", "Cell0225", "Cell0226", "Cell0227", "Cell0228", "Cell0229", "Cell0230", "Cell0231", "Cell0232", "Cell0233", "Cell0234", "Cell0235", "Cell0236", "Cell0237", "Cell0238", "Cell0239", "Cell0240", "Cell0241", "Cell0242", "Cell0243", "Cell0244", "Cell0245", "Cell0246", "Cell0247", "Cell0248", "Cell0249", "Cell0250", "Cell0251", "Cell0252", "Cell0253", "Cell0254", "Cell0255", "Cell0256", "Cell0257", "Cell0258", "Cell0259", "Cell0260", "Cell0261", "Cell0262", "Cell0263", "Cell0264", "Cell0265", "Cell0266", "Cell0267", "Cell0268", "Cell0269", "Cell0270", "Cell0271", "Cell0272", "Cell0273", "Cell0274", "Cell0275", "Cell0276", "Cell0277", "Cell0278", "Cell0279", "Cell0280", "Cell0281", "Cell0282", "Cell0283", "Cell0284", "Cell0285", "Cell0286", "Cell0287", "Cell0288", "Cell0289", "Cell0290", "Cell0291", "Cell0292", "Cell0293", "Cell0294", "Cell0295", "Cell0296", "Cell0297", "Cell0298", "Cell0299", "Cell0300", "Cell0301", "Cell0302", "Cell0303", "Cell0304", "Cell0305", "Cell0306", "Cell0307", "Cell0308", "Cell0309", "Cell0310", "Cell0311", "Cell0312", "Cell0313", "Cell0314", "Cell0315", "Cell0316", "Cell0317", "Cell0318", "Cell0319", "Cell0320", "Cell0321", "Cell0322", "Cell0323", "Cell0324", "Cell0325", "Cell0326", "Cell0327", "Cell0328", "Cell0329", "Cell0330", "Cell0331", "Cell0332", "Cell0333", "Cell0334", "Cell0335", "Cell0336", "Cell0337", "Cell0338", "Cell0339", "Cell0340", "Cell0341", "Cell0342", "Cell0343", "Cell0344", "Cell0345", "Cell0346", "Cell0347", "Cell0348", "Cell0349", "Cell0350", "Cell0351", "Cell0352", "Cell0353", "Cell0354", "Cell0355", "Cell0356", "Cell0357", "Cell0358", "Cell0359", "Cell0360", "Cell0361", "Cell0362", "Cell0363", "Cell0364", "Cell0365", "Cell0366", "Cell0367", "Cell0368", "Cell0369", "Cell0370", "Cell0371", "Cell0372", "Cell0373", "Cell0374", "Cell0375", "Cell0376", "Cell0377", "Cell0378", "Cell0379", "Cell0380", "Cell0381", "Cell0382", "Cell0383", "Cell0384", "Cell0385", "Cell0386", "Cell0387", "Cell0388", "Cell0389", "Cell0390", "Cell0391", "Cell0392", "Cell0393", "Cell0394", "Cell0395", "Cell0396", "Cell0397", "Cell0398", "Cell0399", "Cell0400", "Cell0401", "Cell0402", "Cell0403", "Cell0404", "Cell0405", "Cell0406", "Cell0407", "Cell0408", "Cell0409", "Cell0410", "Cell0411", "Cell0412", "Cell0413", "Cell0414", "Cell0415", "Cell0416", "Cell0417", "Cell0418", "Cell0419", "Cell0420", "Cell0421", "Cell0422", "Cell0423", "Cell0424", "Cell0425", "Cell0426", "Cell0427", "Cell0428", "Cell0429", "Cell0430", "Cell0431", "Cell0432", "Cell0433", "Cell0434", "Cell0435", "Cell0436", "Cell0437", "Cell0438", "Cell0439", "Cell0440", "Cell0441", "Cell0442", "Cell0443", "Cell0444", "Cell0445", "Cell0446", "Cell0447", "Cell0448", "Cell0449", "Cell0450", "Cell0451", "Cell0452", "Cell0453", "Cell0454", "Cell0455", "Cell0456", "Cell0457", "Cell0458", "Cell0459", "Cell0460", "Cell0461", "Cell0462", "Cell0463", "Cell0464", "Cell0465", "Cell0466", "Cell0467", "Cell0468", "Cell0469", "Cell0470", "Cell0471", "Cell0472", "Cell0473", "Cell0474", "Cell0475", "Cell0476", "Cell0477", "Cell0478", "Cell0479", "Cell0480", "Cell0481", "Cell0482", "Cell0483", "Cell0484", "Cell0485", "Cell0486", "Cell0487", "Cell0488", "Cell0489", "Cell0490", "Cell0491", "Cell0492", "Cell0493", "Cell0494", "Cell0495", "Cell0496", "Cell0497", "Cell0498", "Cell0499", "Cell0500", "Cell0501", "Cell0502", "Cell0503", "Cell0504", "Cell0505", "Cell0506", "Cell0507", "Cell0508", "Cell0509", "Cell0510", "Cell0511", "Cell0512", "Cell0513", "Cell0514", "Cell0515", "Cell0516", "Cell0517", "Cell0518", "Cell0519", "Cell0520", "Cell0521", "Cell0522", "Cell0523", "Cell0524", "Cell0525", "Cell0526", "Cell0527", "Cell0528", "Cell0529", "Cell0530", "Cell0531", "Cell0532", "Cell0533", "Cell0534", "Cell0535", "Cell0536", "Cell0537", "Cell0538", "Cell0539", "Cell0540", "Cell0541", "Cell0542", "Cell0543", "Cell0544", "Cell0545", "Cell0546", "Cell0547", "Cell0548", "Cell0549", "Cell0550", "Cell0551", "Cell0552", "Cell0553", "Cell0554", "Cell0555", "Cell0556", "Cell0557", "Cell0558", "Cell0559", "Cell0560", "Cell0561", "Cell0562", "Cell0563", "Cell0564", "Cell0565", "Cell0566", "Cell0567", "Cell0568", "Cell0569", "Cell0570", "Cell0571", "Cell0572", "Cell0573", "Cell0574", "Cell0575", "Cell0576", "Cell0577", "Cell0578", "Cell0579", "Cell0580", "Cell0581", "Cell0582", "Cell0583", "Cell0584", "Cell0585", "Cell0586", "Cell0587", "Cell0588", "Cell0589", "Cell0590", "Cell0591", "Cell0592", "Cell0593", "Cell0594", "Cell0595", "Cell0596", "Cell0597", "Cell0598", "Cell0599", "Cell0600", "Cell0601", "Cell0602", "Cell0603", "Cell0604", "Cell0605", "Cell0606", "Cell0607", "Cell0608", "Cell0609", "Cell0610", "Cell0611", "Cell0612", "Cell0613", "Cell0614", "Cell0615", "Cell0616", "Cell0617", "Cell0618", "Cell0619", "Cell0620", "Cell0621", "Cell0622", "Cell0623", "Cell0624", "Cell0625", "Cell0626", "Cell0627", "Cell0628", "Cell0629", "Cell0630", "Cell0631", "Cell0632", "Cell0633", "Cell0634", "Cell0635", "Cell0636", "Cell0637", "Cell0638", "Cell0639", "Cell0640", "Cell0641", "Cell0642", "Cell0643", "Cell0644", "Cell0645", "Cell0646", "Cell0647", "Cell0648", "Cell0649", "Cell0650", "Cell0651", "Cell0652", "Cell0653", "Cell0654", "Cell0655", "Cell0656", "Cell0657", "Cell0658", "Cell0659", "Cell0660", "Cell0661", "Cell0662", "Cell0663", "Cell0664", "Cell0665", "Cell0666", "Cell0667", "Cell0668", "Cell0669", "Cell0670", "Cell0671", "Cell0672", "Cell0673", "Cell0674", "Cell0675", "Cell0676", "Cell0677", "Cell0678", "Cell0679", "Cell0680", "Cell0681", "Cell0682", "Cell0683", "Cell0684", "Cell0685", "Cell0686", "Cell0687", "Cell0688", "Cell0689", "Cell0690", "Cell0691", "Cell0692", "Cell0693", "Cell0694", "Cell0695", "Cell0696", "Cell0697", "Cell0698", "Cell0699", "Cell0700", "Cell0701", "Cell0702", "Cell0703", "Cell0704", "Cell0705", "Cell0706", "Cell0707", "Cell0708", "Cell0709", "Cell0710", "Cell0711", "Cell0712", "Cell0713", "Cell0714", "Cell0715", "Cell0716", "Cell0717", "Cell0718", "Cell0719", "Cell0720", "Cell0721", "Cell0722", "Cell0723", "Cell0724", "Cell0725", "Cell0726", "Cell0727", "Cell0728", "Cell0729", "Cell0730", "Cell0731", "Cell0732", "Cell0733", "Cell0734", "Cell0735", "Cell0736", "Cell0737", "Cell0738", "Cell0739", "Cell0740", "Cell0741", "Cell0742", "Cell0743", "Cell0744", "Cell0745", "Cell0746", "Cell0747", "Cell0748", "Cell0749", "Cell0750", "Cell0751", "Cell0752", "Cell0753", "Cell0754", "Cell0755", "Cell0756", "Cell0757", "Cell0758", "Cell0759", "Cell0760", "Cell0761", "Cell0762", "Cell0763", "Cell0764", "Cell0765", "Cell0766", "Cell0767", "Cell0768", "Cell0769", "Cell0770", "Cell0771", "Cell0772", "Cell0773", "Cell0774", "Cell0775", "Cell0776", "Cell0777", "Cell0778", "Cell0779", "Cell0780", "Cell0781", "Cell0782", "Cell0783", "Cell0784", "Cell0785", "Cell0786", "Cell0787", "Cell0788", "Cell0789", "Cell0790", "Cell0791", "Cell0792", "Cell0793", "Cell0794", "Cell0795", "Cell0796", "Cell0797", "Cell0798", "Cell0799", "Cell0800", "Cell0801", "Cell0802", "Cell0803", "Cell0804", "Cell0805", "Cell0806", "Cell0807", "Cell0808", "Cell0809", "Cell0810", "Cell0811", "Cell0812", "Cell0813", "Cell0814", "Cell0815", "Cell0816", "Cell0817", "Cell0818", "Cell0819", "Cell0820", "Cell0821", "Cell0822", "Cell0823", "Cell0824", "Cell0825", "Cell0826", "Cell0827", "Cell0828", "Cell0829", "Cell0830", "Cell0831", "Cell0832", "Cell0833", "Cell0834", "Cell0835", "Cell0836", "Cell0837", "Cell0838", "Cell0839", "Cell0840", "Cell0841", "Cell0842", "Cell0843", "Cell0844", "Cell0845", "Cell0846", "Cell0847", "Cell0848", "Cell0849", "Cell0850", "Cell0851", "Cell0852", "Cell0853", "Cell0854", "Cell0855", "Cell0856", "Cell0857", "Cell0858", "Cell0859", "Cell0860", "Cell0861", "Cell0862", "Cell0863", "Cell0864", "Cell0865", "Cell0866", "Cell0867", "Cell0868", "Cell0869", "Cell0870", "Cell0871", "Cell0872", "Cell0873", "Cell0874", "Cell0875", "Cell0876", "Cell0877", "Cell0878", "Cell0879", "Cell0880", "Cell0881", "Cell0882", "Cell0883", "Cell0884", "Cell0885", "Cell0886", "Cell0887", "Cell0888", "Cell0889", "Cell0890", "Cell0891", "Cell0892", "Cell0893", "Cell0894", "Cell0895", "Cell0896", "Cell0897", "Cell0898", "Cell0899", "Cell0900", "Cell0901", "Cell0902", "Cell0903", "Cell0904", "Cell0905", "Cell0906", "Cell0907", "Cell0908", "Cell0909", "Cell0910", "Cell0911", "Cell0912", "Cell0913", "Cell0914", "Cell0915", "Cell0916", "Cell0917", "Cell0918", "Cell0919", "Cell0920", "Cell0921", "Cell0922", "Cell0923", "Cell0924", "Cell0925", "Cell0926", "Cell0927", "Cell0928", "Cell0929", "Cell0930", "Cell0931", "Cell0932", "Cell0933", "Cell0934", "Cell0935", "Cell0936", "Cell0937", "Cell0938", "Cell0939", "Cell0940", "Cell0941", "Cell0942", "Cell0943", "Cell0944", "Cell0945", "Cell0946", "Cell0947", "Cell0948", "Cell0949", "Cell0950", "Cell0951", "Cell0952", "Cell0953", "Cell0954", "Cell0955", "Cell0956", "Cell0957", "Cell0958", "Cell0959", "Cell0960", "Cell0961", "Cell0962", "Cell0963", "Cell0964", "Cell0965", "Cell0966", "Cell0967", "Cell0968", "Cell0969", "Cell0970", "Cell0971", "Cell0972", "Cell0973", "Cell0974", "Cell0975", "Cell0976", "Cell0977", "Cell0978", "Cell0979", "Cell0980", "Cell0981", "Cell0982", "Cell0983", "Cell0984", "Cell0985", "Cell0986", "Cell0987", "Cell0988", "Cell0989", "Cell0990", "Cell0991", "Cell0992", "Cell0993", "Cell0994", "Cell0995", "Cell0996", "Cell0997", "Cell0998", "Cell0999", "Cell1000", "Cell1001", "Cell1002", "Cell1003", "Cell1004", "Cell1005", "Cell1006", "Cell1007", "Cell1008", "Cell1009", "Cell1010", "Cell1011", "Cell1012", "Cell1013", "Cell1014", "Cell1015", "Cell1016", "Cell1017", "Cell1018", "Cell1019", "Cell1020", "Cell1021", "Cell1022", "Cell1023", "Cell1024", "Cell1025", "Cell1026", "Cell1027", "Cell1028", "Cell1029", "Cell1030", "Cell1031", "Cell1032", "Cell1033", "Cell1034", "Cell1035", "Cell1036", "Cell1037", "Cell1038", "Cell1039", "Cell1040", "Cell1041", "Cell1042", "Cell1043", "Cell1044", "Cell1045", "Cell1046", "Cell1047", "Cell1048", "Cell1049", "Cell1050", "Cell1051", "Cell1052", "Cell1053", "Cell1054", "Cell1055", "Cell1056", "Cell1057", "Cell1058", "Cell1059", "Cell1060", "Cell1061", "Cell1062", "Cell1063", "Cell1064", "Cell1065", "Cell1066", "Cell1067", "Cell1068", "Cell1069", "Cell1070", "Cell1071", "Cell1072", "Cell1073", "Cell1074", "Cell1075", "Cell1076", "Cell1077", "Cell1078", "Cell1079", "Cell1080", "Cell1081", "Cell1082", "Cell1083", "Cell1084", "Cell1085", "Cell1086", "Cell1087", "Cell1088", "Cell1089", "Cell1090", "Cell1091", "Cell1092", "Cell1093", "Cell1094", "Cell1095", "Cell1096", "Cell1097", "Cell1098", "Cell1099", "Cell1100", "Cell1101", "Cell1102", "Cell1103", "Cell1104", "Cell1105", "Cell1106", "Cell1107", "Cell1108", "Cell1109", "Cell1110", "Cell1111", "Cell1112", "Cell1113", "Cell1114", "Cell1115", "Cell1116", "Cell1117", "Cell1118", "Cell1119", "Cell1120", "Cell1121", "Cell1122", "Cell1123", "Cell1124", "Cell1125", "Cell1126", "Cell1127", "Cell1128", "Cell1129", "Cell1130", "Cell1131", "Cell1132", "Cell1133", "Cell1134", "Cell1135", "Cell1136", "Cell1137", "Cell1138", "Cell1139", "Cell1140", "Cell1141", "Cell1142", "Cell1143", "Cell1144", "Cell1145", "Cell1146", "Cell1147", "Cell1148", "Cell1149", "Cell1150", "Cell1151", "Cell1152", "Cell1153", "Cell1154", "Cell1155", "Cell1156", "Cell1157", "Cell1158", "Cell1159", "Cell1160", "Cell1161", "Cell1162", "Cell1163", "Cell1164", "Cell1165", "Cell1166", "Cell1167", "Cell1168", "Cell1169", "Cell1170", "Cell1171", "Cell1172", "Cell1173", "Cell1174", "Cell1175", "Cell1176", "Cell1177", "Cell1178", "Cell1179", "Cell1180", "Cell1181", "Cell1182", "Cell1183", "Cell1184", "Cell1185", "Cell1186", "Cell1187", "Cell1188", "Cell1189", "Cell1190", "Cell1191", "Cell1192", "Cell1193", "Cell1194", "Cell1195", "Cell1196", "Cell1197", "Cell1198", "Cell1199", "Cell1200", "Cell1201", "Cell1202", "Cell1203", "Cell1204", "Cell1205", "Cell1206", "Cell1207", "Cell1208", "Cell1209", "Cell1210", "Cell1211", "Cell1212", "Cell1213", "Cell1214", "Cell1215", "Cell1216", "Cell1217", "Cell1218", "Cell1219", "Cell1220", "Cell1221", "Cell1222", "Cell1223", "Cell1224", "Cell1225", "Cell1226", "Cell1227", "Cell1228", "Cell1229", "Cell1230", "Cell1231", "Cell1232", "Cell1233", "Cell1234", "Cell1235", "Cell1236", "Cell1237", "Cell1238", "Cell1239", "Cell1240", "Cell1241", "Cell1242", "Cell1243", "Cell1244", "Cell1245", "Cell1246", "Cell1247", "Cell1248", "Cell1249", "Cell1250", "Cell1251", "Cell1252", "Cell1253", "Cell1254", "Cell1255", "Cell1256", "Cell1257", "Cell1258", "Cell1259", "Cell1260", "Cell1261", "Cell1262", "Cell1263", "Cell1264", "Cell1265", "Cell1266", "Cell1267", "Cell1268", "Cell1269", "Cell1270", "Cell1271", "Cell1272", "Cell1273", "Cell1274", "Cell1275", "Cell1276", "Cell1277", "Cell1278", "Cell1279", "Cell1280", "Cell1281", "Cell1282", "Cell1283", "Cell1284", "Cell1285", "Cell1286", "Cell1287", "Cell1288", "Cell1289", "Cell1290", "Cell1291", "Cell1292", "Cell1293", "Cell1294", "Cell1295", "Cell1296", "Cell1297", "Cell1298", "Cell1299", "Cell1300", "Cell1301", "Cell1302", "Cell1303", "Cell1304", "Cell1305", "Cell1306", "Cell1307", "Cell1308", "Cell1309", "Cell1310", "Cell1311", "Cell1312", "Cell1313", "Cell1314", "Cell1315", "Cell1316", "Cell1317", "Cell1318", "Cell1319", "Cell1320", "Cell1321", "Cell1322", "Cell1323", "Cell1324", "Cell1325", "Cell1326", "Cell1327", "Cell1328", "Cell1329", "Cell1330", "Cell1331", "Cell1332", "Cell1333", "Cell1334", "Cell1335", "Cell1336", "Cell1337", "Cell1338", "Cell1339", "Cell1340", "Cell1341", "Cell1342", "Cell1343", "Cell1344", "Cell1345", "Cell1346", "Cell1347", "Cell1348", "Cell1349", "Cell1350", "Cell1351", "Cell1352", "Cell1353", "Cell1354", "Cell1355", "Cell1356", "Cell1357", "Cell1358", "Cell1359", "Cell1360", "Cell1361", "Cell1362", "Cell1363", "Cell1364", "Cell1365", "Cell1366", "Cell1367", "Cell1368", "Cell1369", "Cell1370", "Cell1371", "Cell1372", "Cell1373", "Cell1374", "Cell1375", "Cell1376", "Cell1377", "Cell1378", "Cell1379", "Cell1380", "Cell1381", "Cell1382", "Cell1383", "Cell1384", "Cell1385", "Cell1386", "Cell1387", "Cell1388", "Cell1389", "Cell1390", "Cell1391", "Cell1392", "Cell1393", "Cell1394", "Cell1395", "Cell1396", "Cell1397", "Cell1398", "Cell1399", "Cell1400", "Cell1401", "Cell1402", "Cell1403", "Cell1404", "Cell1405", "Cell1406", "Cell1407", "Cell1408", "Cell1409", "Cell1410", 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"Monocytes", "B cells", "Dendritic", "T cells", "NK cells", "Fibroblast", "NK cells", "B cells", "Dendritic", "NK cells", "NK cells", "Fibroblast", "Monocytes", "Endothelial", "Macrophage", "NK cells", "Monocytes", "B cells", "Fibroblast", "B cells", "Fibroblast", "Fibroblast", "Endothelial", "B cells", "Dendritic", "B cells", "NK cells", "Fibroblast", "T cells", "Fibroblast", "Endothelial", "B cells", "T cells", "T cells", "Monocytes", "B cells", "Macrophage", "T cells", "B cells", "Fibroblast", "Endothelial", "Monocytes", "NK cells", "Endothelial", "B cells", "Macrophage", "Macrophage", "Monocytes", "T cells", "Dendritic", "Endothelial", "Fibroblast", "Endothelial", "Endothelial", "B cells", "NK cells", "B cells", "NK cells", "Monocytes", "Fibroblast", "Dendritic", "Monocytes", "NK cells", "Fibroblast", "Endothelial", "Monocytes", "B cells", "T cells", "Dendritic", "Endothelial", "Endothelial", "Fibroblast", "Dendritic", "NK cells", "Monocytes", "Endothelial", "Macrophage", "Monocytes", "Endothelial", "T cells", "T cells", "T cells", "NK cells", "NK cells", "Dendritic", "NK cells", "Fibroblast", "Monocytes", "NK cells", "T cells", "NK cells", "Macrophage", "Fibroblast", "Dendritic", "NK cells", "Macrophage", "NK cells", "B cells", "Monocytes", "Monocytes", "Endothelial", "NK cells", "B cells", "Dendritic", "B cells", "Fibroblast", "T cells", "NK cells", "T cells", "B cells", "Macrophage", "Monocytes", "Endothelial", "Monocytes", "T cells", "Endothelial", "B cells", "B cells", "B cells", "B cells", "Fibroblast", "B cells", "Endothelial", "Endothelial", "NK cells", "Fibroblast", "Dendritic", "T cells", "Fibroblast", "Endothelial", "NK cells", "Macrophage", "T cells", "Fibroblast", "Dendritic", "Macrophage", "Dendritic", "Fibroblast", "Dendritic", "Macrophage", "Macrophage", "Monocytes", "B cells", "Monocytes", "Macrophage", "Monocytes", "T cells", "Dendritic", "B cells", "Monocytes", "Monocytes", "T cells", "T cells", "B cells", "T cells", "Monocytes", "Endothelial", "Fibroblast", "Endothelial", "Monocytes", "B cells", "Fibroblast", "Dendritic", "Endothelial", "NK cells", "T cells", "NK cells", "Macrophage", "Monocytes", "Endothelial", "Macrophage", "NK cells", "Macrophage", "Monocytes", "B cells", "Monocytes", "T cells", "Monocytes", "Dendritic", "Fibroblast", "B cells", "Endothelial", "Monocytes", "Fibroblast", "T cells", "B cells", "Macrophage", "Endothelial", "Macrophage", "Macrophage", "T cells", "Endothelial", "Monocytes", "Monocytes", "T cells", "NK cells", "Dendritic", "NK cells", "Dendritic", "Monocytes", "Monocytes", "Endothelial", "Endothelial", "Monocytes", "T cells", "NK cells", "Macrophage", "Fibroblast", "B cells", "T cells", "NK cells", "NK cells", "Dendritic", "Fibroblast", "Monocytes", "Dendritic", "T cells", "NK cells", "Macrophage", "NK cells", "Fibroblast", "T cells", "Macrophage", "T cells", "B cells", "B cells", "NK cells", "Monocytes", "Fibroblast", "Monocytes", "T cells", "Dendritic", "T cells", "T cells", "Endothelial", "Monocytes", "Endothelial", "Macrophage", "NK cells", "Macrophage", "Monocytes", "Dendritic", "T cells", "Macrophage", "B cells", "T cells", "Monocytes", "NK cells", "Endothelial", "Dendritic", "Monocytes", "Endothelial", "Endothelial", "NK cells", "Monocytes", "NK cells", "Dendritic", "Monocytes", "Monocytes", "Macrophage", "Monocytes", "Dendritic", "Monocytes", "Fibroblast", "Fibroblast", "NK cells", "Monocytes", "Fibroblast", "B cells", "Endothelial", "B cells", "Dendritic", "Fibroblast", "NK cells", "Macrophage", "Fibroblast"]
}
},
config = {
"graphType": "Scatter2D",
"title": "Single-cell UMAP explorer",
"subtitle": "3,000 cells, 8 annotated cell types",
"xAxis": ["UMAP-1"],
"yAxis": ["UMAP-2"],
"xAxisTitle": "UMAP-1",
"yAxisTitle": "UMAP-2",
"colorBy": "CellType",
"dataPointSize": 4,
"backgroundType": "panel",
"panelBackgroundColor": "rgb(245,245,245)",
"xAxisGridMajorColor": "rgb(255,255,255)",
"yAxisGridMajorColor": "rgb(255,255,255)",
"legendBox": True,
"legendBackgroundColor": "rgb(255,255,255)",
"axisTickScaleFontFactor": 0.8
},
width = 600,
height = 600
)
# Display the chart in its own Web page
show_in_browser(chart)
Run this notebook:
from canvasxpress.canvas import CanvasXpress
from canvasxpress.plot import graph
graph(
CanvasXpress(
render_to = "scatter2d20",
data = {
"y": {
"vars": ["Cell0001", "Cell0002", "Cell0003", "Cell0004", "Cell0005", "Cell0006", "Cell0007", "Cell0008", "Cell0009", "Cell0010", "Cell0011", "Cell0012", "Cell0013", "Cell0014", "Cell0015", "Cell0016", "Cell0017", "Cell0018", "Cell0019", "Cell0020", "Cell0021", "Cell0022", "Cell0023", "Cell0024", "Cell0025", "Cell0026", "Cell0027", "Cell0028", "Cell0029", "Cell0030", "Cell0031", "Cell0032", "Cell0033", "Cell0034", "Cell0035", "Cell0036", "Cell0037", "Cell0038", "Cell0039", "Cell0040", "Cell0041", "Cell0042", "Cell0043", "Cell0044", "Cell0045", "Cell0046", "Cell0047", "Cell0048", "Cell0049", "Cell0050", "Cell0051", "Cell0052", "Cell0053", "Cell0054", "Cell0055", "Cell0056", "Cell0057", "Cell0058", "Cell0059", "Cell0060", "Cell0061", "Cell0062", "Cell0063", "Cell0064", "Cell0065", "Cell0066", "Cell0067", "Cell0068", "Cell0069", "Cell0070", "Cell0071", "Cell0072", "Cell0073", "Cell0074", "Cell0075", "Cell0076", "Cell0077", "Cell0078", "Cell0079", "Cell0080", "Cell0081", "Cell0082", "Cell0083", "Cell0084", "Cell0085", "Cell0086", "Cell0087", "Cell0088", "Cell0089", "Cell0090", "Cell0091", "Cell0092", "Cell0093", "Cell0094", "Cell0095", "Cell0096", "Cell0097", "Cell0098", "Cell0099", "Cell0100", "Cell0101", "Cell0102", "Cell0103", "Cell0104", "Cell0105", "Cell0106", "Cell0107", "Cell0108", "Cell0109", "Cell0110", "Cell0111", "Cell0112", "Cell0113", "Cell0114", "Cell0115", "Cell0116", "Cell0117", "Cell0118", "Cell0119", "Cell0120", "Cell0121", "Cell0122", "Cell0123", "Cell0124", "Cell0125", "Cell0126", "Cell0127", "Cell0128", "Cell0129", "Cell0130", "Cell0131", "Cell0132", "Cell0133", "Cell0134", "Cell0135", "Cell0136", "Cell0137", "Cell0138", "Cell0139", "Cell0140", "Cell0141", "Cell0142", "Cell0143", "Cell0144", "Cell0145", "Cell0146", "Cell0147", "Cell0148", "Cell0149", "Cell0150", "Cell0151", "Cell0152", "Cell0153", "Cell0154", "Cell0155", "Cell0156", "Cell0157", "Cell0158", "Cell0159", "Cell0160", "Cell0161", "Cell0162", "Cell0163", "Cell0164", "Cell0165", "Cell0166", "Cell0167", "Cell0168", "Cell0169", "Cell0170", "Cell0171", "Cell0172", "Cell0173", "Cell0174", "Cell0175", "Cell0176", "Cell0177", "Cell0178", "Cell0179", "Cell0180", "Cell0181", "Cell0182", "Cell0183", "Cell0184", "Cell0185", "Cell0186", "Cell0187", "Cell0188", "Cell0189", "Cell0190", "Cell0191", "Cell0192", "Cell0193", "Cell0194", "Cell0195", "Cell0196", "Cell0197", "Cell0198", "Cell0199", "Cell0200", "Cell0201", "Cell0202", "Cell0203", "Cell0204", "Cell0205", "Cell0206", "Cell0207", "Cell0208", "Cell0209", "Cell0210", "Cell0211", "Cell0212", "Cell0213", "Cell0214", "Cell0215", "Cell0216", "Cell0217", "Cell0218", "Cell0219", "Cell0220", "Cell0221", "Cell0222", "Cell0223", "Cell0224", "Cell0225", "Cell0226", "Cell0227", "Cell0228", "Cell0229", "Cell0230", "Cell0231", "Cell0232", "Cell0233", "Cell0234", "Cell0235", "Cell0236", "Cell0237", "Cell0238", "Cell0239", "Cell0240", "Cell0241", "Cell0242", "Cell0243", "Cell0244", "Cell0245", "Cell0246", "Cell0247", "Cell0248", "Cell0249", "Cell0250", "Cell0251", "Cell0252", "Cell0253", "Cell0254", "Cell0255", "Cell0256", "Cell0257", "Cell0258", "Cell0259", "Cell0260", "Cell0261", "Cell0262", "Cell0263", "Cell0264", "Cell0265", "Cell0266", "Cell0267", "Cell0268", "Cell0269", "Cell0270", "Cell0271", "Cell0272", "Cell0273", "Cell0274", "Cell0275", "Cell0276", "Cell0277", "Cell0278", "Cell0279", "Cell0280", "Cell0281", "Cell0282", "Cell0283", "Cell0284", "Cell0285", "Cell0286", "Cell0287", "Cell0288", "Cell0289", "Cell0290", "Cell0291", "Cell0292", "Cell0293", "Cell0294", "Cell0295", "Cell0296", "Cell0297", "Cell0298", "Cell0299", "Cell0300", "Cell0301", "Cell0302", "Cell0303", "Cell0304", "Cell0305", "Cell0306", "Cell0307", "Cell0308", "Cell0309", "Cell0310", "Cell0311", "Cell0312", "Cell0313", "Cell0314", "Cell0315", "Cell0316", "Cell0317", "Cell0318", "Cell0319", "Cell0320", "Cell0321", "Cell0322", "Cell0323", "Cell0324", "Cell0325", "Cell0326", "Cell0327", "Cell0328", "Cell0329", "Cell0330", "Cell0331", "Cell0332", "Cell0333", "Cell0334", "Cell0335", "Cell0336", "Cell0337", "Cell0338", "Cell0339", "Cell0340", "Cell0341", "Cell0342", "Cell0343", "Cell0344", "Cell0345", "Cell0346", "Cell0347", "Cell0348", "Cell0349", "Cell0350", "Cell0351", "Cell0352", "Cell0353", "Cell0354", "Cell0355", "Cell0356", "Cell0357", "Cell0358", "Cell0359", "Cell0360", "Cell0361", "Cell0362", "Cell0363", "Cell0364", "Cell0365", "Cell0366", "Cell0367", "Cell0368", "Cell0369", "Cell0370", "Cell0371", "Cell0372", "Cell0373", "Cell0374", "Cell0375", "Cell0376", "Cell0377", "Cell0378", "Cell0379", "Cell0380", "Cell0381", "Cell0382", "Cell0383", "Cell0384", "Cell0385", "Cell0386", "Cell0387", "Cell0388", "Cell0389", "Cell0390", "Cell0391", "Cell0392", "Cell0393", "Cell0394", "Cell0395", "Cell0396", "Cell0397", "Cell0398", "Cell0399", "Cell0400", "Cell0401", "Cell0402", "Cell0403", "Cell0404", "Cell0405", "Cell0406", "Cell0407", "Cell0408", "Cell0409", "Cell0410", "Cell0411", "Cell0412", "Cell0413", "Cell0414", "Cell0415", "Cell0416", "Cell0417", "Cell0418", "Cell0419", "Cell0420", "Cell0421", "Cell0422", "Cell0423", "Cell0424", "Cell0425", "Cell0426", "Cell0427", "Cell0428", "Cell0429", "Cell0430", "Cell0431", "Cell0432", "Cell0433", "Cell0434", "Cell0435", "Cell0436", "Cell0437", "Cell0438", "Cell0439", "Cell0440", "Cell0441", "Cell0442", "Cell0443", "Cell0444", "Cell0445", "Cell0446", "Cell0447", "Cell0448", "Cell0449", "Cell0450", "Cell0451", "Cell0452", "Cell0453", "Cell0454", "Cell0455", "Cell0456", "Cell0457", "Cell0458", "Cell0459", "Cell0460", "Cell0461", "Cell0462", "Cell0463", "Cell0464", "Cell0465", "Cell0466", "Cell0467", "Cell0468", "Cell0469", "Cell0470", "Cell0471", "Cell0472", "Cell0473", "Cell0474", "Cell0475", "Cell0476", "Cell0477", "Cell0478", "Cell0479", "Cell0480", "Cell0481", "Cell0482", "Cell0483", "Cell0484", "Cell0485", "Cell0486", "Cell0487", "Cell0488", "Cell0489", "Cell0490", "Cell0491", "Cell0492", "Cell0493", "Cell0494", "Cell0495", "Cell0496", "Cell0497", "Cell0498", "Cell0499", "Cell0500", "Cell0501", "Cell0502", "Cell0503", "Cell0504", "Cell0505", "Cell0506", "Cell0507", "Cell0508", "Cell0509", "Cell0510", "Cell0511", "Cell0512", "Cell0513", "Cell0514", "Cell0515", "Cell0516", "Cell0517", "Cell0518", "Cell0519", "Cell0520", "Cell0521", "Cell0522", "Cell0523", "Cell0524", "Cell0525", "Cell0526", "Cell0527", "Cell0528", "Cell0529", "Cell0530", "Cell0531", "Cell0532", "Cell0533", "Cell0534", "Cell0535", "Cell0536", "Cell0537", "Cell0538", "Cell0539", "Cell0540", "Cell0541", "Cell0542", "Cell0543", "Cell0544", "Cell0545", "Cell0546", "Cell0547", "Cell0548", "Cell0549", "Cell0550", "Cell0551", "Cell0552", "Cell0553", "Cell0554", "Cell0555", "Cell0556", "Cell0557", "Cell0558", "Cell0559", "Cell0560", "Cell0561", "Cell0562", "Cell0563", "Cell0564", "Cell0565", "Cell0566", "Cell0567", "Cell0568", "Cell0569", "Cell0570", "Cell0571", "Cell0572", "Cell0573", "Cell0574", "Cell0575", "Cell0576", "Cell0577", "Cell0578", "Cell0579", "Cell0580", "Cell0581", "Cell0582", "Cell0583", "Cell0584", "Cell0585", "Cell0586", "Cell0587", "Cell0588", "Cell0589", "Cell0590", "Cell0591", "Cell0592", "Cell0593", "Cell0594", "Cell0595", "Cell0596", "Cell0597", "Cell0598", "Cell0599", "Cell0600", "Cell0601", "Cell0602", "Cell0603", "Cell0604", "Cell0605", "Cell0606", "Cell0607", "Cell0608", "Cell0609", "Cell0610", "Cell0611", "Cell0612", "Cell0613", "Cell0614", "Cell0615", "Cell0616", "Cell0617", "Cell0618", "Cell0619", "Cell0620", "Cell0621", "Cell0622", "Cell0623", "Cell0624", "Cell0625", "Cell0626", "Cell0627", "Cell0628", "Cell0629", "Cell0630", "Cell0631", "Cell0632", "Cell0633", "Cell0634", "Cell0635", "Cell0636", "Cell0637", "Cell0638", "Cell0639", "Cell0640", "Cell0641", "Cell0642", "Cell0643", "Cell0644", "Cell0645", "Cell0646", "Cell0647", "Cell0648", "Cell0649", "Cell0650", "Cell0651", "Cell0652", "Cell0653", "Cell0654", "Cell0655", "Cell0656", "Cell0657", "Cell0658", "Cell0659", "Cell0660", "Cell0661", "Cell0662", "Cell0663", "Cell0664", "Cell0665", "Cell0666", "Cell0667", "Cell0668", "Cell0669", "Cell0670", "Cell0671", "Cell0672", "Cell0673", "Cell0674", "Cell0675", "Cell0676", "Cell0677", "Cell0678", "Cell0679", "Cell0680", "Cell0681", "Cell0682", "Cell0683", "Cell0684", "Cell0685", "Cell0686", "Cell0687", "Cell0688", "Cell0689", "Cell0690", "Cell0691", "Cell0692", "Cell0693", "Cell0694", "Cell0695", "Cell0696", "Cell0697", "Cell0698", "Cell0699", "Cell0700", "Cell0701", "Cell0702", "Cell0703", "Cell0704", "Cell0705", "Cell0706", "Cell0707", "Cell0708", "Cell0709", "Cell0710", "Cell0711", "Cell0712", "Cell0713", "Cell0714", "Cell0715", "Cell0716", "Cell0717", "Cell0718", "Cell0719", "Cell0720", "Cell0721", "Cell0722", "Cell0723", "Cell0724", "Cell0725", "Cell0726", "Cell0727", "Cell0728", "Cell0729", "Cell0730", "Cell0731", "Cell0732", "Cell0733", "Cell0734", "Cell0735", "Cell0736", "Cell0737", "Cell0738", "Cell0739", "Cell0740", "Cell0741", "Cell0742", "Cell0743", "Cell0744", "Cell0745", "Cell0746", "Cell0747", "Cell0748", "Cell0749", "Cell0750", "Cell0751", "Cell0752", "Cell0753", "Cell0754", "Cell0755", "Cell0756", "Cell0757", "Cell0758", "Cell0759", "Cell0760", "Cell0761", "Cell0762", "Cell0763", "Cell0764", "Cell0765", "Cell0766", "Cell0767", "Cell0768", "Cell0769", "Cell0770", "Cell0771", "Cell0772", "Cell0773", "Cell0774", "Cell0775", "Cell0776", "Cell0777", "Cell0778", "Cell0779", "Cell0780", "Cell0781", "Cell0782", "Cell0783", "Cell0784", "Cell0785", "Cell0786", "Cell0787", "Cell0788", "Cell0789", "Cell0790", "Cell0791", "Cell0792", "Cell0793", "Cell0794", "Cell0795", "Cell0796", "Cell0797", "Cell0798", "Cell0799", "Cell0800", "Cell0801", "Cell0802", "Cell0803", "Cell0804", "Cell0805", "Cell0806", "Cell0807", "Cell0808", "Cell0809", "Cell0810", "Cell0811", "Cell0812", "Cell0813", "Cell0814", "Cell0815", "Cell0816", "Cell0817", "Cell0818", "Cell0819", "Cell0820", "Cell0821", "Cell0822", "Cell0823", "Cell0824", "Cell0825", "Cell0826", "Cell0827", "Cell0828", "Cell0829", "Cell0830", "Cell0831", "Cell0832", "Cell0833", "Cell0834", "Cell0835", "Cell0836", "Cell0837", "Cell0838", "Cell0839", "Cell0840", "Cell0841", "Cell0842", "Cell0843", "Cell0844", "Cell0845", "Cell0846", "Cell0847", "Cell0848", "Cell0849", "Cell0850", "Cell0851", "Cell0852", "Cell0853", "Cell0854", "Cell0855", "Cell0856", "Cell0857", "Cell0858", "Cell0859", "Cell0860", "Cell0861", "Cell0862", "Cell0863", "Cell0864", "Cell0865", "Cell0866", "Cell0867", "Cell0868", "Cell0869", "Cell0870", "Cell0871", "Cell0872", "Cell0873", "Cell0874", "Cell0875", "Cell0876", "Cell0877", "Cell0878", "Cell0879", "Cell0880", "Cell0881", "Cell0882", "Cell0883", "Cell0884", "Cell0885", "Cell0886", "Cell0887", "Cell0888", "Cell0889", "Cell0890", "Cell0891", "Cell0892", "Cell0893", "Cell0894", "Cell0895", "Cell0896", "Cell0897", "Cell0898", "Cell0899", "Cell0900", "Cell0901", "Cell0902", "Cell0903", "Cell0904", "Cell0905", "Cell0906", "Cell0907", "Cell0908", "Cell0909", "Cell0910", "Cell0911", "Cell0912", "Cell0913", "Cell0914", "Cell0915", "Cell0916", "Cell0917", "Cell0918", "Cell0919", "Cell0920", "Cell0921", "Cell0922", "Cell0923", "Cell0924", "Cell0925", "Cell0926", "Cell0927", "Cell0928", "Cell0929", "Cell0930", "Cell0931", "Cell0932", "Cell0933", "Cell0934", "Cell0935", "Cell0936", "Cell0937", "Cell0938", "Cell0939", "Cell0940", "Cell0941", "Cell0942", "Cell0943", "Cell0944", "Cell0945", "Cell0946", "Cell0947", "Cell0948", "Cell0949", "Cell0950", "Cell0951", "Cell0952", "Cell0953", "Cell0954", "Cell0955", "Cell0956", "Cell0957", "Cell0958", "Cell0959", "Cell0960", "Cell0961", "Cell0962", "Cell0963", "Cell0964", "Cell0965", "Cell0966", "Cell0967", "Cell0968", "Cell0969", "Cell0970", "Cell0971", "Cell0972", "Cell0973", "Cell0974", "Cell0975", "Cell0976", "Cell0977", "Cell0978", "Cell0979", "Cell0980", "Cell0981", "Cell0982", "Cell0983", "Cell0984", "Cell0985", "Cell0986", "Cell0987", "Cell0988", "Cell0989", "Cell0990", "Cell0991", "Cell0992", "Cell0993", "Cell0994", "Cell0995", 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