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12.2 years ago
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I am trying to get some data processed with PAMR however I constantly get this error:
object of type 'closure' is not subsettable
The command I'm trying to execute is:
data$x<- read.table("GSE8607_series_matrix_pamr.txt", sep="\t")
Here's an extract of my data:
ID_REF:Affymetrix GSM213467 GSM213468 GSM213469 GSM213470 GSM213471 GSM213472 GSM213473 GSM213474 GSM213475 GSM213476 GSM213477 GSM213478 GSM213479 GSM213480 GSM213481 GSM213482 GSM213483 GSM213484 GSM213485 GSM213486 GSM213487 GSM213488 GSM213489 GSM213490 GSM213491 GSM213492 GSM213493 GSM213494 GSM213495 GSM213496 GSM213497 GSM213498 GSM213499 GSM213501 GSM213502 GSM213503 GSM213504 GSM213505 GSM213506 GSM213507 GSM213508 GSM213509 GSM213510
#class Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa1 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 Etapa4 "1000_at" 1413.83 1514.82 1348.94 2172.53 892.271 1294.55 809.316 1241.71 1136.22 734.243 948.142 1075.58 1090.9 1064.72 898.675 1141.47 925.75 1163.61 1044.09 1075.53 2117.86 1987.66 902.812 1745.59 1630.86 1944.59 862.752 1446.76 910.196 1001.82 917.932 960.058 1220.9 1420.46 1396.41 939.36 1184.71 861.708 1137.66 1684.18 1517.35 2148.55 1573.16 "1001_at" 92.1566 65.2595 103.024 460.925 121.657 186.35 133.224 89.2561 29.9992 75.741 128.287 138.454 112.218 204.446 138.836 142.738 121.785 148.701 122.207 92.7091 70.9685 291.417 140.37 181.268 266.055 347.586 125.264 302.187 122.348 89.5844 161.026 102.472 182.084 111.624 141.402 119.162 146.068 61.556 123.777 366.309 114.768 66.5499 86.8179 "1002_f_at" 21.8172 43.2422 20.7109 186.968 17.8681 35.8325 70.9926 27.7219 89.4961 49.624 49.3047 55.329 52.3349 27.0831 17.8611 32.2348 49.3057 66.6912 30.6116 22.7418 147.276 335.494 39.7379 7.25751 46.7628 97.5076 26.5286 22.3532 53.4994 35.264 92.2511 29.9185 231.239 20.1712 12.3882 22.5304 103.632 41.2218 75.5324 138.411 65.7054 75.2798 39.6764 "1003_s_at" 26.9999 26.6193 41.5755 50.484 330.733 246.752 200.234 42.9983 81.4183 217.867 51.496 214.387 107.879 63.6559 85.4732 84.1175 100.312 228.603 124.966 109.989 68.3454 248.319 195.605 386.688 80.453 201.535 43.701 106.941 63.7569 57.758 163.532 42.5553 162.722 74.0284 98.0253 165.305 81.8241 142.843 116.116 44.3205 284.094 79.47 81.5479 "1004_at" 35.9134 73.1345 21.8214 684.947 702.481 90.4352 328.316 89.9075 112.308 253.557 184.909 299.436 402.331 204.794 234.799 172.397 151.173 383.339 313.459 277.196 348.811 283.15 280.292 1248.75 243.092 238.15 123.545 256.75 157.425 241.232 325.219 278.9 82.2522 240.092 188.441 367.044 304.057 235.924 293.364 62.8265 223.886 464.647 172.791 "1005_at" 548.452 568.115 1947.51 475.402 716.041 566.791 830.457 713.838 407.64 1215.28 1207.97 522.877 1136.99 5351.64 446.935 838.358 584.457 410.117 356.605 415.075 509.889 144.122 472.874 185.007 512.708 64.9194 590.681 309.45 630.001 968.632 742.527 1090.19 122.305 225.481 317.38 1288.17 2183.55 462.014 257.57 778.23 81.5677 649.825 295.857 "1006_at" 50.0263 6.02078 80.4661 58.5581 6.45041 15.8062 6.01295 6.81831 9.47086 9.50754 7.00971 2.93539 24.8264 6.60019 7.56652 4.46223 7.49979 11.1001 6.91017 5.44199 21.4446 20.5042 6.39556 20.4825 102.489 41.6693 11.2836 11.2706 10.9046 3.74402 12.5883 15.2708 59.8245 22.7277 13.0799 21.8956 20.736 9.87517 11.0357 9.20369 92.4146 340.239 11.2847 "1007_s_at" 1212.07 1171.33 1077.27 4743.55 1907.68 2535.7 1785.48 3178.63 2212.49 2611.96 2620.62 1953 1914.37 1678.63 3657.57 2695.61 3015 1384.46 1908.98 2047.69 3009.99 2747.86 1347.85 1630.23 3206.11 3542.94 2014.71 2220.45 2700.56 3828.45 3694.32 3045.96 3954.91 3498.62 2233.02 2741.7 1795.1 2458.32 2633.81 2833.07 5805.37 3738.96 2559.2 "1008_f_at" 675.792 1408.48 1035.56 939.012 845.605 1815.19 1395.61 1771.85 850.641 1358.36 1501.38 1504.62 466.012 1237.49 2953.05 1231.16 1104.03 1080.73 1352.31 813.176 1063.31 3185.62 2176.2 1609.42 1619.71 1278.68 631.816 762.823 5095.18 2447.39 3126.11 1147.77 524.923 731.171 551.561 2465.4 2985.2 805.253 1494.81 1576.09 2804.06 1515.52 3502.3
I can't seem to find the problem, could anybody help please?
this fixed it, thanks! I am trying to follow the tutorial but overall I'm new to this field so still getting the hang of it =)
Now that I think about it, data$x could refer to a list (data) where element x is a data frame. However, that is not clear on the tutorial page that you mentioned on Twitter.