Last data update: 2014.03.03
R: Multiple comparison of the temperature dependent variance of...
Multiple comparison of the temperature dependent variance of the refMFI
Description
MFIerror is used for a fast multiple comparison of the temperature dependent
variance of the refMFI. MFIerror returns an object of the class data.frame
with columns “Temperature”, “Location” (Mean, Median), “Deviation”
(Standard Deviation, Median Absolute Deviation) and “Coefficient of
Variation”.
Usage
MFIerror(x, y, CV = FALSE, RSD = FALSE, rob = FALSE, errplot = TRUE,
type = "p", pch = 19, length = 0.05, col = "black")
Arguments
x
is the column of a data frame for the temperature.
y
are multiple columns of fluorescence values from a
data.frame (e.g., [, c(1:n)]).
CV
If CV is true the coefficient of variation (RSD, CV) is
plotted. If set to FLASE the deviation as Standard Deviation or Median
Absolute Deviation is plotted.
RSD
Setting the option RSD=TRUE shows the relative standard
deviation (RSD) in percent.
rob
Using the option rob as TRUE the median and the median
absolute deviation (MAD) is plotted instead of the mean and standard
deviation.
errplot
sets MFIerror() to plot the results (default). In the
default setting (CV=FALSE) the mean with the standard deviations is
plotted.
type
is a graphical parameter setting the plot use lines, points or
both (see plot).
pch
is a graphical parameter used to define the symbol used in the
plot.
length
length is a graphical parameter used to define the
length of the error bar used in the plot.
col
col is a graphical parameter used to define the color of
the error bar used in the plot.
Value
res
returns a data.frame containing the
"Temperature", "Location" (mean, median), "Deviation" (standard deviation,
median absolute deviation), "Coefficient of Variance" (CV, RSD) sequential
in the columns.
Author(s)
Stefan Roediger
See Also
mcaSmoother
Examples
# First Example
# Temperature dependent variance of the refMFI using standard measures
# (Mean, Standard Deviation (SD)).
# Use Standard Deviation (SD) in the plot
data(MultiMelt)
MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)])
# Second Example
# Temperature dependent relative variance of the refMFI using robust
# measures (Median, Median Absolute Deviation (MAD)). The parameter
# errplot is set to FALSE in order to prevent the plot of the
# coefficient of variation versus the temperature.
MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)], errplot = FALSE,
RSD = TRUE, rob = TRUE)
# Third Example
# Temperature dependent relative variance of the refMFI using
# robust measures (Median, Median Absolute Deviation (MAD)).
MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)], RSD = TRUE,
rob = TRUE)
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(MBmca)
Loading required package: robustbase
Loading required package: chipPCR
> png(filename="/home/ddbj/snapshot/RGM3/R_CC/result/MBmca/MFIerror.Rd_%03d_medium.png", width=480, height=480)
> ### Name: MFIerror
> ### Title: Multiple comparison of the temperature dependent variance of the
> ### refMFI
> ### Aliases: MFIerror
> ### Keywords: deviation
>
> ### ** Examples
>
> # First Example
> # Temperature dependent variance of the refMFI using standard measures
> # (Mean, Standard Deviation (SD)).
> # Use Standard Deviation (SD) in the plot
>
> data(MultiMelt)
> MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)])
Temperature Location (Mean) Deviation (SD) Coefficient of Variance (RSD [%])
1 41 0.1158968 0.03535687 0.30507192
2 42 0.1183012 0.03519572 0.29750952
3 43 0.1243215 0.03444044 0.27702718
4 44 0.1194848 0.03279933 0.27450631
5 45 0.1234000 0.03320249 0.26906389
6 46 0.1202434 0.03349530 0.27856256
7 47 0.1185291 0.03395397 0.28646097
8 48 0.1168380 0.03464021 0.29648060
9 49 0.1177223 0.03547084 0.30130956
10 50 0.1218104 0.03453184 0.28348852
11 51 0.1202815 0.03370450 0.28021344
12 52 0.1097289 0.03358856 0.30610481
13 53 0.1160501 0.03444020 0.29677026
14 54 0.1232068 0.03607030 0.29276236
15 55 0.1231259 0.03538511 0.28738975
16 56 0.1206820 0.03554257 0.29451432
17 57 0.1258874 0.03442592 0.27346589
18 58 0.1305011 0.03671948 0.28137288
19 59 0.1300650 0.03586642 0.27575762
20 60 0.1320018 0.03641799 0.27589011
21 61 0.1353589 0.03574811 0.26409870
22 62 0.1398019 0.03553167 0.25415722
23 63 0.1441817 0.03483432 0.24160013
24 64 0.1517874 0.03557304 0.23436092
25 65 0.1621476 0.03590494 0.22143368
26 66 0.1704919 0.03402282 0.19955686
27 67 0.1770473 0.03111468 0.17574219
28 68 0.1958822 0.03690459 0.18840200
29 69 0.2249435 0.03561875 0.15834530
30 70 0.2537539 0.03547750 0.13981066
31 71 0.2952384 0.04165148 0.14107746
32 72 0.3386111 0.04465119 0.13186568
33 73 0.3857431 0.04988458 0.12932072
34 74 0.4701156 0.06061657 0.12893971
35 75 0.5945076 0.07089847 0.11925579
36 76 0.7748250 0.09011437 0.11630287
37 77 1.0831392 0.10752068 0.09926764
38 78 1.4397687 0.12264635 0.08518476
39 79 1.7688098 0.13868023 0.07840313
40 80 2.0417450 0.15326854 0.07506743
41 81 2.2466703 0.16337847 0.07272027
42 82 2.2489586 0.14989204 0.06664953
43 83 2.2734705 0.17002970 0.07478861
44 84 2.3416069 0.15576829 0.06652196
45 85 2.3107771 0.14574356 0.06307123
46 86 2.3284780 0.14884762 0.06392486
47 87 2.3342692 0.15725895 0.06736967
48 88 2.3341860 0.14927722 0.06395258
49 89 2.3266255 0.15728971 0.06760422
50 90 2.2965774 0.14540729 0.06331478
51 91 2.3296006 0.15248106 0.06545374
52 92 2.3143173 0.15468330 0.06683755
53 93 2.3067023 0.14958567 0.06484828
54 94 2.2959352 0.15387046 0.06701864
55 95 2.2339332 0.14914490 0.06676336
>
> # Second Example
> # Temperature dependent relative variance of the refMFI using robust
> # measures (Median, Median Absolute Deviation (MAD)). The parameter
> # errplot is set to FALSE in order to prevent the plot of the
> # coefficient of variation versus the temperature.
>
> MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)], errplot = FALSE,
+ RSD = TRUE, rob = TRUE)
Temperature Location (Median) Deviation (MAD) Coefficient of Variance (RSD)
1 41 0.1168285 0.04122801 35.289338
2 42 0.1215367 0.04101982 33.750985
3 43 0.1280435 0.03643447 28.454749
4 44 0.1245683 0.03210703 25.774635
5 45 0.1257807 0.03522705 28.006728
6 46 0.1239386 0.03238555 26.130330
7 47 0.1198350 0.03550124 29.625088
8 48 0.1170686 0.03872362 33.077703
9 49 0.1239683 0.03301374 26.630793
10 50 0.1266961 0.03492535 27.566230
11 51 0.1213526 0.04018901 33.117542
12 52 0.1100487 0.03978803 36.154943
13 53 0.1160415 0.04083214 35.187547
14 54 0.1227026 0.03983820 32.467292
15 55 0.1234013 0.03935518 31.892022
16 56 0.1221147 0.04291504 35.143218
17 57 0.1289138 0.03414819 26.489164
18 58 0.1341233 0.03702443 27.604776
19 59 0.1312609 0.03938580 30.005742
20 60 0.1321967 0.04327486 32.735202
21 61 0.1367864 0.03959086 28.943571
22 62 0.1413276 0.04235376 29.968493
23 63 0.1516598 0.02769896 18.263880
24 64 0.1602753 0.03695345 23.056239
25 65 0.1701476 0.03816645 22.431381
26 66 0.1775352 0.04289941 24.163891
27 67 0.1831476 0.03881242 21.191888
28 68 0.2013120 0.04385745 21.785814
29 69 0.2302643 0.04243650 18.429471
30 70 0.2558282 0.04530070 17.707471
31 71 0.3028309 0.05299881 17.501122
32 72 0.3538425 0.04260346 12.040233
33 73 0.3936964 0.06036933 15.333979
34 74 0.4777797 0.06732794 14.091839
35 75 0.6116125 0.08339078 13.634577
36 76 0.7827370 0.11555330 14.762723
37 77 1.0928498 0.14053960 12.859919
38 78 1.4418975 0.15874469 11.009430
39 79 1.7385041 0.21185609 12.186114
40 80 2.0462325 0.17767627 8.683093
41 81 2.2659962 0.17367966 7.664605
42 82 2.2341561 0.19718484 8.825921
43 83 2.2186537 0.23815827 10.734360
44 84 2.3313814 0.19591251 8.403280
45 85 2.2930867 0.19927744 8.690358
46 86 2.3087026 0.21525757 9.323746
47 87 2.3339224 0.18997721 8.139825
48 88 2.3406028 0.16331644 6.977538
49 89 2.3167884 0.19910561 8.594035
50 90 2.2998986 0.19313564 8.397572
51 91 2.3256096 0.18802335 8.084906
52 92 2.3009024 0.19181761 8.336625
53 93 2.2954785 0.20142504 8.774861
54 94 2.3061236 0.20814946 9.025945
55 95 2.2137000 0.19708364 8.902906
>
> # Third Example
> # Temperature dependent relative variance of the refMFI using
> # robust measures (Median, Median Absolute Deviation (MAD)).
> MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)], RSD = TRUE,
+ rob = TRUE)
Temperature Location (Median) Deviation (MAD) Coefficient of Variance (RSD)
1 41 0.1168285 0.04122801 35.289338
2 42 0.1215367 0.04101982 33.750985
3 43 0.1280435 0.03643447 28.454749
4 44 0.1245683 0.03210703 25.774635
5 45 0.1257807 0.03522705 28.006728
6 46 0.1239386 0.03238555 26.130330
7 47 0.1198350 0.03550124 29.625088
8 48 0.1170686 0.03872362 33.077703
9 49 0.1239683 0.03301374 26.630793
10 50 0.1266961 0.03492535 27.566230
11 51 0.1213526 0.04018901 33.117542
12 52 0.1100487 0.03978803 36.154943
13 53 0.1160415 0.04083214 35.187547
14 54 0.1227026 0.03983820 32.467292
15 55 0.1234013 0.03935518 31.892022
16 56 0.1221147 0.04291504 35.143218
17 57 0.1289138 0.03414819 26.489164
18 58 0.1341233 0.03702443 27.604776
19 59 0.1312609 0.03938580 30.005742
20 60 0.1321967 0.04327486 32.735202
21 61 0.1367864 0.03959086 28.943571
22 62 0.1413276 0.04235376 29.968493
23 63 0.1516598 0.02769896 18.263880
24 64 0.1602753 0.03695345 23.056239
25 65 0.1701476 0.03816645 22.431381
26 66 0.1775352 0.04289941 24.163891
27 67 0.1831476 0.03881242 21.191888
28 68 0.2013120 0.04385745 21.785814
29 69 0.2302643 0.04243650 18.429471
30 70 0.2558282 0.04530070 17.707471
31 71 0.3028309 0.05299881 17.501122
32 72 0.3538425 0.04260346 12.040233
33 73 0.3936964 0.06036933 15.333979
34 74 0.4777797 0.06732794 14.091839
35 75 0.6116125 0.08339078 13.634577
36 76 0.7827370 0.11555330 14.762723
37 77 1.0928498 0.14053960 12.859919
38 78 1.4418975 0.15874469 11.009430
39 79 1.7385041 0.21185609 12.186114
40 80 2.0462325 0.17767627 8.683093
41 81 2.2659962 0.17367966 7.664605
42 82 2.2341561 0.19718484 8.825921
43 83 2.2186537 0.23815827 10.734360
44 84 2.3313814 0.19591251 8.403280
45 85 2.2930867 0.19927744 8.690358
46 86 2.3087026 0.21525757 9.323746
47 87 2.3339224 0.18997721 8.139825
48 88 2.3406028 0.16331644 6.977538
49 89 2.3167884 0.19910561 8.594035
50 90 2.2998986 0.19313564 8.397572
51 91 2.3256096 0.18802335 8.084906
52 92 2.3009024 0.19181761 8.336625
53 93 2.2954785 0.20142504 8.774861
54 94 2.3061236 0.20814946 9.025945
55 95 2.2137000 0.19708364 8.902906
>
>
>
>
>
> dev.off()
null device
1
>
providing 
.
