Description Usage Arguments Details Value Author(s) See Also Examples
View source: R/spectramaxImport.R
Import output files from Spectramax spectrophotometer (plate reader) into the list format compatible with the cellHTS2 package.
1 | spectramaxImport(file, encoding="latin1")
|
file |
A Spectramax file |
encoding |
File character encoding, by default “latin1” |
The function imports output files from Spectramax plate reader, with which single-channel cell-based assays could be performed. Such assay includes WST-1 viability assay, which can be used to validate RTCA assay results.
A list of two items: one data frame (no name) and one character vector (txt). The data frame contains following columns:
well |
Well indices ([A-Z][0-9][0-9] format) on the microtitre plate |
val |
Value of each well |
The character vector txt contains a copy of the file contents.
Jitao David Zhang <jitao_david.zhang@roche.com>
cellHTS2 package documentation.
1 2 3 4 5 6 7 8 9 | wstFiles <- dir(system.file("extdata", package="RTCA"),
pattern="^WST.*csv$", full.names=TRUE)
spectramaxImport(wstFiles[1])
## NOT RUN
## spectramaxImport also supports multiple files, in which case the
## result is a list of individual lists
spectramaxImport(wstFiles)
## END NOT RUN
|
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:stats’:
IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
anyDuplicated, append, as.data.frame, basename, cbind, colnames,
dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep,
grepl, intersect, is.unsorted, lapply, Map, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unsplit, which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: RColorBrewer
Loading required package: gtools
[[1]]
well val
1 A01 0.8418
2 A02 1.1461
3 A03 0.7507
4 A04 0.8919
5 A05 1.4515
6 A06 0.8852
7 A07 1.3086
8 A08 0.7005
9 A09 0.7103
10 A10 0.8516
11 A11 0.6629
12 A12 0.8230
13 B01 0.6564
14 B02 0.6347
15 B03 1.0209
16 B04 0.5768
17 B05 0.7648
18 B06 0.8500
19 B07 1.1708
20 B08 1.0678
21 B09 0.6044
22 B10 0.8102
23 B11 0.7272
24 B12 0.6461
25 C01 0.8059
26 C02 0.7071
27 C03 0.7196
28 C04 0.7801
29 C05 0.8277
30 C06 0.5966
31 C07 0.7307
32 C08 0.5555
33 C09 0.6208
34 C10 0.8486
35 C11 0.6674
36 C12 0.6908
37 D01 1.2612
38 D02 0.7967
39 D03 0.8734
40 D04 1.0377
41 D05 0.8368
42 D06 0.6960
43 D07 0.6227
44 D08 0.7018
45 D09 0.8157
46 D10 0.7835
47 D11 0.6195
48 D12 0.9039
49 E01 1.0698
50 E02 0.8368
51 E03 0.6195
52 E04 0.8238
53 E05 0.8109
54 E06 0.6351
55 E07 0.6762
56 E08 0.6154
57 E09 0.9764
58 E10 0.6738
59 E11 0.7268
60 E12 3.9097
61 F01 0.6948
62 F02 0.6303
63 F03 0.8006
64 F04 0.9147
65 F05 0.7392
66 F06 0.8870
67 F07 0.7461
68 F08 0.6141
69 F09 1.0231
70 F10 0.9180
71 F11 0.8580
72 F12 4.0000
73 G01 4.0000
74 G02 1.0807
75 G03 0.7954
76 G04 0.8813
77 G05 0.7510
78 G06 0.8683
79 G07 0.6575
80 G08 0.9138
81 G09 0.8857
82 G10 0.6024
83 G11 0.6968
84 G12 4.0000
85 H01 4.0000
86 H02 1.2625
87 H03 0.7272
88 H04 1.2100
89 H05 1.4784
90 H06 0.8508
91 H07 0.7486
92 H08 0.7804
93 H09 0.6331
94 H10 0.6729
95 H11 0.8374
96 H12 4.0000
$txt
[1] "##BLOCKS= 1 "
[2] "Plate:\tPlate#1\t1,1\tPlateFormat\tEndpoint\tAbsorbance\tRaw\tFALSE\t1\t\t\t\t\t\t1\t450\t1\t12\t96\t"
[3] "\tTemperature(¡C)\t1\t2\t3\t4\t5\t6\t7\t8\t9\t10\t11\t12\t\t"
[4] "\t26,00\t0,8418\t1,1461\t0,7507\t0,8919\t1,4515\t0,8852\t1,3086\t0,7005\t0,7103\t0,8516\t0,6629\t0,823\t\t"
[5] "\t\t0,6564\t0,6347\t1,0209\t0,5768\t0,7648\t0,85\t1,1708\t1,0678\t0,6044\t0,8102\t0,7272\t0,6461\t\t"
[6] "\t\t0,8059\t0,7071\t0,7196\t0,7801\t0,8277\t0,5966\t0,7307\t0,5555\t0,6208\t0,8486\t0,6674\t0,6908\t\t"
[7] "\t\t1,2612\t0,7967\t0,8734\t1,0377\t0,8368\t0,696\t0,6227\t0,7018\t0,8157\t0,7835\t0,6195\t0,9039\t\t"
[8] "\t\t1,0698\t0,8368\t0,6195\t0,8238\t0,8109\t0,6351\t0,6762\t0,6154\t0,9764\t0,6738\t0,7268\t3,9097\t\t"
[9] "\t\t0,6948\t0,6303\t0,8006\t0,9147\t0,7392\t0,887\t0,7461\t0,6141\t1,0231\t0,918\t0,858\t4\t\t"
[10] "\t\t4\t1,0807\t0,7954\t0,8813\t0,751\t0,8683\t0,6575\t0,9138\t0,8857\t0,6024\t0,6968\t4\t\t"
[11] "\t\t4\t1,2625\t0,7272\t1,21\t1,4784\t0,8508\t0,7486\t0,7804\t0,6331\t0,6729\t0,8374\t4\t\t"
[12] "\t\t"
[13] "\tTemperature(¡C)\t1\t2\t3\t4\t5\t6\t7\t8\t9\t10\t11\t12\t\t"
[14] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[15] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[16] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[17] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[18] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[19] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[20] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[21] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[22] "~End"
[[1]]
[[1]][[1]]
well val
1 A01 0.8418
2 A02 1.1461
3 A03 0.7507
4 A04 0.8919
5 A05 1.4515
6 A06 0.8852
7 A07 1.3086
8 A08 0.7005
9 A09 0.7103
10 A10 0.8516
11 A11 0.6629
12 A12 0.8230
13 B01 0.6564
14 B02 0.6347
15 B03 1.0209
16 B04 0.5768
17 B05 0.7648
18 B06 0.8500
19 B07 1.1708
20 B08 1.0678
21 B09 0.6044
22 B10 0.8102
23 B11 0.7272
24 B12 0.6461
25 C01 0.8059
26 C02 0.7071
27 C03 0.7196
28 C04 0.7801
29 C05 0.8277
30 C06 0.5966
31 C07 0.7307
32 C08 0.5555
33 C09 0.6208
34 C10 0.8486
35 C11 0.6674
36 C12 0.6908
37 D01 1.2612
38 D02 0.7967
39 D03 0.8734
40 D04 1.0377
41 D05 0.8368
42 D06 0.6960
43 D07 0.6227
44 D08 0.7018
45 D09 0.8157
46 D10 0.7835
47 D11 0.6195
48 D12 0.9039
49 E01 1.0698
50 E02 0.8368
51 E03 0.6195
52 E04 0.8238
53 E05 0.8109
54 E06 0.6351
55 E07 0.6762
56 E08 0.6154
57 E09 0.9764
58 E10 0.6738
59 E11 0.7268
60 E12 3.9097
61 F01 0.6948
62 F02 0.6303
63 F03 0.8006
64 F04 0.9147
65 F05 0.7392
66 F06 0.8870
67 F07 0.7461
68 F08 0.6141
69 F09 1.0231
70 F10 0.9180
71 F11 0.8580
72 F12 4.0000
73 G01 4.0000
74 G02 1.0807
75 G03 0.7954
76 G04 0.8813
77 G05 0.7510
78 G06 0.8683
79 G07 0.6575
80 G08 0.9138
81 G09 0.8857
82 G10 0.6024
83 G11 0.6968
84 G12 4.0000
85 H01 4.0000
86 H02 1.2625
87 H03 0.7272
88 H04 1.2100
89 H05 1.4784
90 H06 0.8508
91 H07 0.7486
92 H08 0.7804
93 H09 0.6331
94 H10 0.6729
95 H11 0.8374
96 H12 4.0000
[[1]]$txt
[1] "##BLOCKS= 1 "
[2] "Plate:\tPlate#1\t1,1\tPlateFormat\tEndpoint\tAbsorbance\tRaw\tFALSE\t1\t\t\t\t\t\t1\t450\t1\t12\t96\t"
[3] "\tTemperature(¡C)\t1\t2\t3\t4\t5\t6\t7\t8\t9\t10\t11\t12\t\t"
[4] "\t26,00\t0,8418\t1,1461\t0,7507\t0,8919\t1,4515\t0,8852\t1,3086\t0,7005\t0,7103\t0,8516\t0,6629\t0,823\t\t"
[5] "\t\t0,6564\t0,6347\t1,0209\t0,5768\t0,7648\t0,85\t1,1708\t1,0678\t0,6044\t0,8102\t0,7272\t0,6461\t\t"
[6] "\t\t0,8059\t0,7071\t0,7196\t0,7801\t0,8277\t0,5966\t0,7307\t0,5555\t0,6208\t0,8486\t0,6674\t0,6908\t\t"
[7] "\t\t1,2612\t0,7967\t0,8734\t1,0377\t0,8368\t0,696\t0,6227\t0,7018\t0,8157\t0,7835\t0,6195\t0,9039\t\t"
[8] "\t\t1,0698\t0,8368\t0,6195\t0,8238\t0,8109\t0,6351\t0,6762\t0,6154\t0,9764\t0,6738\t0,7268\t3,9097\t\t"
[9] "\t\t0,6948\t0,6303\t0,8006\t0,9147\t0,7392\t0,887\t0,7461\t0,6141\t1,0231\t0,918\t0,858\t4\t\t"
[10] "\t\t4\t1,0807\t0,7954\t0,8813\t0,751\t0,8683\t0,6575\t0,9138\t0,8857\t0,6024\t0,6968\t4\t\t"
[11] "\t\t4\t1,2625\t0,7272\t1,21\t1,4784\t0,8508\t0,7486\t0,7804\t0,6331\t0,6729\t0,8374\t4\t\t"
[12] "\t\t"
[13] "\tTemperature(¡C)\t1\t2\t3\t4\t5\t6\t7\t8\t9\t10\t11\t12\t\t"
[14] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[15] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[16] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[17] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[18] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[19] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[20] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[21] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[22] "~End"
[[2]]
[[2]][[1]]
well val
1 A01 0.6909
2 A02 0.7777
3 A03 0.6789
4 A04 0.8947
5 A05 0.9559
6 A06 0.8031
7 A07 1.0867
8 A08 0.5962
9 A09 0.6286
10 A10 0.6615
11 A11 0.6923
12 A12 0.7713
13 B01 0.6220
14 B02 0.6381
15 B03 0.8448
16 B04 0.6431
17 B05 0.7317
18 B06 0.6570
19 B07 1.1038
20 B08 0.7921
21 B09 0.5948
22 B10 0.7926
23 B11 0.6992
24 B12 0.7124
25 C01 0.6260
26 C02 0.5985
27 C03 0.6633
28 C04 0.5649
29 C05 0.7042
30 C06 0.6174
31 C07 0.6151
32 C08 0.5732
33 C09 0.5746
34 C10 0.6847
35 C11 0.6010
36 C12 0.6467
37 D01 0.8067
38 D02 0.7343
39 D03 0.8928
40 D04 1.1655
41 D05 0.7490
42 D06 0.6335
43 D07 0.5354
44 D08 0.6514
45 D09 0.7788
46 D10 0.6458
47 D11 0.5899
48 D12 0.6491
49 E01 0.8322
50 E02 0.7243
51 E03 0.5818
52 E04 1.1071
53 E05 0.8134
54 E06 0.6617
55 E07 0.7217
56 E08 0.6346
57 E09 0.7907
58 E10 0.7367
59 E11 0.7503
60 E12 3.2344
61 F01 0.7017
62 F02 0.5943
63 F03 0.6206
64 F04 0.9087
65 F05 0.8079
66 F06 0.8056
67 F07 0.7029
68 F08 0.5198
69 F09 0.6621
70 F10 0.6964
71 F11 0.7311
72 F12 3.1705
73 G01 3.7214
74 G02 0.7721
75 G03 0.6879
76 G04 0.9567
77 G05 0.6829
78 G06 0.7044
79 G07 0.5764
80 G08 0.7579
81 G09 0.8166
82 G10 0.5758
83 G11 0.7845
84 G12 3.4257
85 H01 3.9439
86 H02 1.1261
87 H03 0.7129
88 H04 1.0079
89 H05 1.0756
90 H06 0.7270
91 H07 0.8401
92 H08 0.7087
93 H09 0.6357
94 H10 0.5935
95 H11 0.8831
96 H12 3.4315
[[2]]$txt
[1] "##BLOCKS= 1 "
[2] "Plate:\tPlate#1\t1,1\tPlateFormat\tEndpoint\tAbsorbance\tRaw\tFALSE\t1\t\t\t\t\t\t1\t450\t1\t12\t96\t"
[3] "\tTemperature(¡C)\t1\t2\t3\t4\t5\t6\t7\t8\t9\t10\t11\t12\t\t"
[4] "\t26,00\t0,6909\t0,7777\t0,6789\t0,8947\t0,9559\t0,8031\t1,0867\t0,5962\t0,6286\t0,6615\t0,6923\t0,7713\t\t"
[5] "\t\t0,622\t0,6381\t0,8448\t0,6431\t0,7317\t0,657\t1,1038\t0,7921\t0,5948\t0,7926\t0,6992\t0,7124\t\t"
[6] "\t\t0,626\t0,5985\t0,6633\t0,5649\t0,7042\t0,6174\t0,6151\t0,5732\t0,5746\t0,6847\t0,601\t0,6467\t\t"
[7] "\t\t0,8067\t0,7343\t0,8928\t1,1655\t0,749\t0,6335\t0,5354\t0,6514\t0,7788\t0,6458\t0,5899\t0,6491\t\t"
[8] "\t\t0,8322\t0,7243\t0,5818\t1,1071\t0,8134\t0,6617\t0,7217\t0,6346\t0,7907\t0,7367\t0,7503\t3,2344\t\t"
[9] "\t\t0,7017\t0,5943\t0,6206\t0,9087\t0,8079\t0,8056\t0,7029\t0,5198\t0,6621\t0,6964\t0,7311\t3,1705\t\t"
[10] "\t\t3,7214\t0,7721\t0,6879\t0,9567\t0,6829\t0,7044\t0,5764\t0,7579\t0,8166\t0,5758\t0,7845\t3,4257\t\t"
[11] "\t\t3,9439\t1,1261\t0,7129\t1,0079\t1,0756\t0,727\t0,8401\t0,7087\t0,6357\t0,5935\t0,8831\t3,4315\t\t"
[12] "\t\t"
[13] "\tTemperature(¡C)\t1\t2\t3\t4\t5\t6\t7\t8\t9\t10\t11\t12\t\t"
[14] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[15] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[16] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[17] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[18] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[19] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[20] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[21] "\t\t \t \t \t \t \t \t \t \t \t \t \t \t"
[22] "~End"
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.