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samplesForChrSynthetic

All samples information, formated by `methylKit`, in a `methylBase` format (for demo purpose).

Bundled with methInheritSim · exported, loads via data()

Class
methylBase
Elements
40
Missing
0
Format
rda · xz
version 2 · 263 KB
File
data/samplesForChrSynthetic.RData
Fingerprint
079f2c85
Structure
Distinct
38
Element length
9,864 – 9,864
Total length
394,560
Elements
Element
Type
Distinct
Missing
Summary
chr
factor
1
0
S9,864
start
numeric
9,864
0
1000 – 36347198mean 1.921e+7
Min.
1000
1st Qu.
10539107
Median
1.92633e+7
Mean
1.921e+7
3rd Qu.
2.85077e+7
Max.
36347198
Std. dev
1.08184e+7
Skewness
-0.187
Kurtosis
-1.168
Order
ascending
end
numeric
9,864
0
1000 – 36347198mean 1.921e+7
Min.
1000
1st Qu.
10539107
Median
1.92633e+7
Mean
1.921e+7
3rd Qu.
2.85077e+7
Max.
36347198
Std. dev
1.08184e+7
Skewness
-0.187
Kurtosis
-1.168
Order
ascending
strand
factor
1
0
+9,864
coverage1
numeric
56
0
50 – 108mean 81.01
Min.
50
1st Qu.
75
Median
81
Mean
81.0107
3rd Qu.
87
Max.
108
Std. dev
8.9028
Skewness
0.0837
Kurtosis
-0.0905
Outliers
5221 low · 31 high
numCs1
numeric
109
0
0 – 108mean 18.29
Min.
0
1st Qu.
0
Median
1
Mean
18.2876
3rd Qu.
18
Max.
108
Std. dev
30.7501
Skewness
1.415
Kurtosis
0.2513
Zeros
2,962
Outliers
2,0460 low · 2046 high
numTs1
numeric
109
0
0 – 108mean 62.72
Min.
0
1st Qu.
59
Median
75.5
Mean
62.7231
3rd Qu.
83
Max.
108
Std. dev
31.5025
Skewness
-1.143
Kurtosis
-0.2327
Zeros
589
Outliers
1,9131913 low · 0 high
coverage2
numeric
60
0
45 – 109mean 80.98
Min.
45
1st Qu.
75
Median
81
Mean
80.9774
3rd Qu.
87
Max.
109
Std. dev
8.918
Skewness
0.076
Kurtosis
-0.0968
Outliers
4614 low · 32 high
numCs2
numeric
109
0
0 – 109mean 18.34
Min.
0
1st Qu.
0
Median
1
Mean
18.3429
3rd Qu.
17
Max.
109
Std. dev
30.8541
Skewness
1.417
Kurtosis
0.2664
Zeros
2,902
Outliers
2,1050 low · 2105 high
numTs2
numeric
110
0
0 – 109mean 62.63
Min.
0
1st Qu.
59
Median
75
Mean
62.6345
3rd Qu.
83
Max.
109
Std. dev
31.4555
Skewness
-1.146
Kurtosis
-0.2292
Zeros
587
Outliers
1,9151915 low · 0 high
coverage3
numeric
56
0
52 – 107mean 80.77
Min.
52
1st Qu.
75
Median
81
Mean
80.7742
3rd Qu.
87
Max.
107
Std. dev
8.91
Skewness
0.0603
Kurtosis
-0.1503
Outliers
4120 low · 21 high
numCs3
numeric
106
0
0 – 106mean 18.28
Min.
0
1st Qu.
0
Median
1
Mean
18.2826
3rd Qu.
17
Max.
106
Std. dev
30.7497
Skewness
1.414
Kurtosis
0.2469
Zeros
2,909
Outliers
2,0980 low · 2098 high
numTs3
numeric
108
0
0 – 107mean 62.49
Min.
0
1st Qu.
59
Median
75
Mean
62.4916
3rd Qu.
83
Max.
107
Std. dev
31.3678
Skewness
-1.148
Kurtosis
-0.2214
Zeros
583
Outliers
1,9041904 low · 0 high
coverage4
numeric
64
0
47 – 111mean 81.05
Min.
47
1st Qu.
75
Median
81
Mean
81.0463
3rd Qu.
87
Max.
111
Std. dev
9.067
Skewness
0.083
Kurtosis
-0.0404
Outliers
6222 low · 40 high
numCs4
numeric
110
0
0 – 109mean 18.3
Min.
0
1st Qu.
0
Median
1
Mean
18.295
3rd Qu.
17
Max.
109
Std. dev
30.8081
Skewness
1.42
Kurtosis
0.277
Zeros
2,920
Outliers
2,0940 low · 2094 high
numTs4
numeric
112
0
0 – 111mean 62.75
Min.
0
1st Qu.
59
Median
75
Mean
62.7513
3rd Qu.
83
Max.
111
Std. dev
31.5539
Skewness
-1.144
Kurtosis
-0.2311
Zeros
592
Outliers
1,9261926 low · 0 high
coverage5
numeric
60
0
50 – 109mean 81.12
Min.
50
1st Qu.
75
Median
81
Mean
81.1176
3rd Qu.
87
Max.
109
Std. dev
8.8917
Skewness
0.0632
Kurtosis
-0.1019
Outliers
4816 low · 32 high
numCs5
numeric
106
0
0 – 109mean 18.31
Min.
0
1st Qu.
0
Median
1
Mean
18.306
3rd Qu.
18
Max.
109
Std. dev
30.8222
Skewness
1.416
Kurtosis
0.2616
Zeros
2,948
Outliers
2,0530 low · 2053 high
numTs5
numeric
110
0
0 – 109mean 62.81
Min.
0
1st Qu.
59
Median
76
Mean
62.8116
3rd Qu.
83
Max.
109
Std. dev
31.5101
Skewness
-1.145
Kurtosis
-0.233
Zeros
572
Outliers
1,9071907 low · 0 high
coverage6
numeric
59
0
48 – 109mean 80.85
Min.
48
1st Qu.
75
Median
81
Mean
80.8469
3rd Qu.
87
Max.
109
Std. dev
8.7943
Skewness
0.0362
Kurtosis
-0.108
Outliers
4925 low · 24 high
numCs6
numeric
109
0
0 – 109mean 18.38
Min.
0
1st Qu.
0
Median
1
Mean
18.3783
3rd Qu.
17
Max.
109
Std. dev
30.8487
Skewness
1.404
Kurtosis
0.2141
Zeros
2,883
Outliers
2,1200 low · 2120 high
numTs6
numeric
110
0
0 – 109mean 62.47
Min.
0
1st Qu.
59
Median
75
Mean
62.4686
3rd Qu.
83
Max.
109
Std. dev
31.4223
Skewness
-1.146
Kurtosis
-0.2365
Zeros
631
Outliers
1,9101910 low · 0 high
coverage7
numeric
60
0
46 – 109mean 81.03
Min.
46
1st Qu.
75
Median
81
Mean
81.033
3rd Qu.
87
Max.
109
Std. dev
8.9207
Skewness
0.0958
Kurtosis
-0.0751
Outliers
5519 low · 36 high
numCs7
numeric
107
0
0 – 108mean 18.4
Min.
0
1st Qu.
0
Median
1
Mean
18.4024
3rd Qu.
19
Max.
108
Std. dev
30.6067
Skewness
1.408
Kurtosis
0.2499
Zeros
2,879
Outliers
2,0350 low · 2035 high
numTs7
numeric
110
0
0 – 109mean 62.63
Min.
0
1st Qu.
58
Median
75
Mean
62.6307
3rd Qu.
83
Max.
109
Std. dev
31.4062
Skewness
-1.138
Kurtosis
-0.2318
Zeros
593
Outliers
1,8831883 low · 0 high
coverage8
numeric
59
0
50 – 109mean 80.93
Min.
50
1st Qu.
75
Median
81
Mean
80.9295
3rd Qu.
87
Max.
109
Std. dev
8.8029
Skewness
0.0832
Kurtosis
-0.11
Outliers
4622 low · 24 high
numCs8
numeric
106
0
0 – 105mean 18.51
Min.
0
1st Qu.
0
Median
1
Mean
18.5147
3rd Qu.
19
Max.
105
Std. dev
30.743
Skewness
1.405
Kurtosis
0.2381
Zeros
2,891
Outliers
2,0370 low · 2037 high
numTs8
numeric
110
0
0 – 109mean 62.41
Min.
0
1st Qu.
58
Median
75
Mean
62.4148
3rd Qu.
83
Max.
109
Std. dev
31.2869
Skewness
-1.139
Kurtosis
-0.2364
Zeros
555
Outliers
1,9001900 low · 0 high
coverage9
numeric
59
0
48 – 108mean 80.99
Min.
48
1st Qu.
75
Median
81
Mean
80.9869
3rd Qu.
87
Max.
108
Std. dev
8.9126
Skewness
0.0594
Kurtosis
-0.0913
Outliers
5626 low · 30 high
numCs9
numeric
106
0
0 – 105mean 18.4
Min.
0
1st Qu.
0
Median
1
Mean
18.4018
3rd Qu.
19
Max.
105
Std. dev
30.5805
Skewness
1.408
Kurtosis
0.2473
Zeros
2,859
Outliers
2,0300 low · 2030 high
numTs9
numeric
109
0
0 – 108mean 62.59
Min.
0
1st Qu.
58
Median
75
Mean
62.5852
3rd Qu.
83
Max.
108
Std. dev
31.3467
Skewness
-1.139
Kurtosis
-0.235
Zeros
582
Outliers
1,8931893 low · 0 high
coverage10
numeric
58
0
48 – 109mean 81.01
Min.
48
1st Qu.
75
Median
81
Mean
81.0119
3rd Qu.
87
Max.
109
Std. dev
8.8308
Skewness
0.0321
Kurtosis
-0.1294
Outliers
4421 low · 23 high
numCs10
numeric
105
0
0 – 107mean 18.44
Min.
0
1st Qu.
0
Median
1
Mean
18.438
3rd Qu.
19
Max.
107
Std. dev
30.6538
Skewness
1.406
Kurtosis
0.2378
Zeros
2,862
Outliers
2,0340 low · 2034 high
numTs10
numeric
109
0
0 – 108mean 62.57
Min.
0
1st Qu.
59
Median
75
Mean
62.5739
3rd Qu.
83
Max.
108
Std. dev
31.3726
Skewness
-1.143
Kurtosis
-0.2365
Zeros
552
Outliers
1,9211921 low · 0 high
coverage11
numeric
58
0
45 – 108mean 80.83
Min.
45
1st Qu.
75
Median
81
Mean
80.833
3rd Qu.
87
Max.
108
Std. dev
8.8784
Skewness
0.0668
Kurtosis
-0.1468
Outliers
4124 low · 17 high
numCs11
numeric
108
0
0 – 107mean 18.43
Min.
0
1st Qu.
0
Median
1
Mean
18.4345
3rd Qu.
18
Max.
107
Std. dev
30.7782
Skewness
1.408
Kurtosis
0.2391
Zeros
2,899
Outliers
2,0520 low · 2052 high
numTs11
numeric
109
0
0 – 108mean 62.4
Min.
0
1st Qu.
58
Median
75
Mean
62.3985
3rd Qu.
83
Max.
108
Std. dev
31.2804
Skewness
-1.142
Kurtosis
-0.2281
Zeros
608
Outliers
1,8811881 low · 0 high
coverage12
numeric
63
0
48 – 111mean 81
Min.
48
1st Qu.
75
Median
81
Mean
80.9954
3rd Qu.
87
Max.
111
Std. dev
8.953
Skewness
0.0582
Kurtosis
-0.0863
Outliers
6222 low · 40 high
numCs12
numeric
106
0
0 – 105mean 18.27
Min.
0
1st Qu.
0
Median
1
Mean
18.2659
3rd Qu.
18
Max.
105
Std. dev
30.6835
Skewness
1.418
Kurtosis
0.2698
Zeros
2,915
Outliers
2,0500 low · 2050 high
numTs12
numeric
111
0
0 – 110mean 62.73
Min.
0
1st Qu.
59
Median
76
Mean
62.7295
3rd Qu.
83
Max.
110
Std. dev
31.4366
Skewness
-1.149
Kurtosis
-0.223
Zeros
566
Outliers
1,9121912 low · 0 high
Declared attributes
Other attributes

Read by name, kind and length, with the value where it is short enough to show. No rule here knows what any of them means.

AttributeHoldsLengthValue
.S3Classcharacter1data.frame
assemblycharacter1Rnor_5.0
contextcharacter1CpG
coverage.indexnumeric125 – 38
destrandedlogical1FALSE
numCs.indexnumeric126 – 39
numTs.indexnumeric127 – 40
resolutioncharacter1base
sample.idscharacter12
treatmentnumeric120 – 1
Version history
VersionReleasedRows × ColsChangeStored asConfidence
3.232026-04-28–Unchangedrda · xz
version 2 · 263 KB
exact
3.222025-10-29–Unchangedrda · xz
version 2 · 263 KB
exact
3.212025-04-15–Unchangedrda · xz
version 2 · 263 KB
exact
3.202024-10-29–Unchangedrda · xz
version 2 · 263 KB
exact
3.192024-04-30–Unchangedrda · xz
version 2 · 263 KB
exact
3.182023-10-24–Unchangedrda · xz
version 2 · 263 KB
exact
3.172023-04-25–Unchangedrda · xz
version 2 · 263 KB
exact
3.162022-11-01–Unchangedrda · xz
version 2 · 263 KB
exact
3.152022-04-26–Unchangedrda · xz
version 2 · 263 KB
exact
3.142021-10-26–Unchangedrda · xz
version 2 · 263 KB
exact
3.132021-05-19–Unchangedrda · xz
version 2 · 263 KB
exact
3.122020-10-27–Unchangedrda · xz
version 2 · 263 KB
exact
3.112020-04-27–Unchangedrda · xz
version 2 · 263 KB
exact
3.102019-10-29–Unchangedrda · xz
version 2 · 263 KB
exact
3.92019-05-02–Unchangedrda · xz
version 2 · 263 KB
exact
3.82018-12-05–Unchangedrda · xz
version 2 · 263 KB
exact
3.72018-04-30–Unchangedrda · xz
version 2 · 263 KB
exact
3.62017-10-30––rda · xz
version 2 · 263 KB
exact

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