jaccard.test: Test for Jaccard/Tanimoto similarity coefficients
In jaccard: Test Similarity Between Binary Data using Jaccard/Tanimoto Coefficients
Description
Usage
Arguments
Details
Value
Optional arguments for method="bootstrap"
Optional arguments for method="mca"
See Also
Examples
Description
Compute statistical significance of Jaccard/Tanimoto similarity coefficients between binary vectors, using four different methods.
Usage
1
2
jaccard.test(x, y, method = "mca", px = NULL, py = NULL, verbose = TRUE,
...)
Arguments
x
a binary vector (e.g., fingerprint)
y
a binary vector (e.g., fingerprint)
method
a method to compute a p-value ("mca", "bootstrap", "asymptotic", or "exact")
px
probability of successes in x (optional)
py
probability of successes in y (optional)
verbose
whether to print progress messages
...
optional arguments for specific computational methods
Details
There exist four methods to compute p-values of Jaccard/Tanimoto similarity coefficients:
mca, bootstrap, asymptotic, and exact. This is simply a wrapper function for
corresponding four functions in this package: jaccard.test.mca, jaccard.test.bootstrap, jaccard.test.asymptotic, and jaccard.test.exact.
We recommand using either mca or bootstrap methods,
since the exact solution is slow for a moderately large vector and asymptotic approximation may be inaccurate depending on the input vector size.
The bootstrap method uses resampling with replacement binary vectors to compute a p-value (see optional arguments).
The mca method uses the measure concentration algorithm that estimates the multinomial distribution with a known error bound (specified by an optional argument accuracy).
Value
jaccard.test returns a list mainly consisting of
statistics
centered Jaccard/Tanimoto similarity coefficient
pvalue
p-value
expectation
expectation
Optional arguments for method="bootstrap"
- fix
whether to fix (i.e., not resample) x and/or y
- B
a total bootstrap iteration
- seed
a seed for a random number generator
Optional arguments for method="mca"
- accuracy
an error bound on approximating a multinomial distribution
- error.type
an error type on approximating a multinomial distribution ("average", "upper", "lower")
- seed
a seed for the random number generator.
See Also
jaccard.test.bootstrap jaccard.test.mca jaccard.test.exact jaccard.test.asymptotic
Examples
1
2
3
4
5
6
7
set.seed(1234)
x = rbinom(100,1,.5)
y = rbinom(100,1,.5)
jaccard.test(x,y,method="bootstrap")
jaccard.test(x,y,method="mca")
jaccard.test(x,y,method="exact")
jaccard.test(x,y,method="asymptotic")
Example output
Bootstrap Procedures :
100 200 300 400 500 600 700 800 900 1000 $statistics
[1] -0.02460145
$statistics.null
[1] -0.0489180408 0.0044296788 0.0308631787 -0.0112775240 -0.0498575499
[6] 0.0807138179 -0.0652350571 0.0191649555 -0.0263461114 -0.0436781609
[11] 0.0026790108 0.0000000000 -0.0674151311 -0.0317304241 -0.0207655142
[16] -0.0498575499 0.0677795031 0.0276833414 0.0368923112 -0.0035064574
[21] -0.0009072658 0.0276833414 -0.0395869191 0.0424255297 0.0390355913
[26] 0.0174825175 -0.0207655142 -0.0789036545 -0.0609528487 0.0379442982
[31] -0.0089749646 0.0276833414 -0.0207402180 0.0055476529 -0.0674151311
[36] 0.0256192450 -0.0489180408 -0.0581945229 -0.0765785938 0.0354251012
[41] -0.0652350571 0.0795470497 -0.0149786469 -0.0149786469 0.0613074252
[46] 0.0379442982 -0.0674151311 -0.0282605410 -0.0071239718 -0.0721366479
[51] -0.1085311969 0.0174390102 0.0174808406 -0.0131141808 0.0073381465
[56] -0.0226696259 -0.0341683778 -0.0457642516 -0.0246014493 0.0453050786
[61] 0.0191649555 0.0394657976 -0.0263461114 -0.1013346163 0.0986445415
[66] 0.0613074252 -0.0146985962 0.0140252454 -0.0900866813 -0.0560704356
[71] -0.0539728132 0.0482624005 0.0308631787 0.0954213982 -0.0489180408
[76] 0.0240471513 -0.0395869191 0.0548935842 -0.0247216731 -0.0089749646
[81] 0.0409593592 -0.0247216731 0.0243882326 -0.0361925511 0.0240471513
[86] -0.0878012048 0.0190767934 -0.0035064574 0.0095154156 -0.0718513291
[91] 0.0108323407 0.0108323407 0.0061524144 -0.0375820310 0.0783546864
[96] 0.0758901198 -0.0017394829 0.0609284988 -0.0131141808 -0.0017394829
[101] 0.0452778988 -0.0188890000 -0.0531294881 -0.0149786469 -0.0856836006
[106] -0.0108543417 0.0613074252 -0.0246014493 0.0292874396 0.0496987952
[111] 0.0733137830 0.0677795031 -0.0539728132 0.0292874396 0.0086189206
[116] -0.0765785938 0.0818557266 0.0191649555 -0.0510104831 -0.0053012048
[121] 0.0867139959 -0.0089749646 0.0409593592 -0.0265610438 -0.0035064574
[126] -0.0027433479 -0.0424279105 0.0276833414 0.0000000000 0.1523107355
[131] -0.0436781609 0.0703239519 0.0009001153 -0.0468523724 0.0348153376
[136] 0.0256192450 0.0256192450 -0.0035064574 0.0271644333 -0.0341683778
[141] -0.0108543417 0.0298992890 -0.0560704356 0.0703239519 -0.0721366479
[146] -0.0369278973 -0.0457642516 0.0240471513 -0.0053012048 -0.0375820310
[151] -0.0428018076 -0.0027433479 -0.0609528487 0.0108323407 0.0276833414
[156] 0.0529610014 -0.0302023558 0.0467980296 -0.0089749646 -0.0833042596
[161] -0.0168710805 0.0339315128 0.0379442982 0.0009001153 0.0315683056
[166] 0.0308631787 0.0157677185 0.0453050786 0.0771359700 0.0026790108
[171] 0.0394657976 0.0108323407 0.0544231807 -0.0436781609 0.0111564042
[176] 0.0158613373 0.0125366330 0.0482624005 -0.0468523724 0.0409593592
[181] 0.0026790108 -0.0547273841 0.0174825175 0.0292874396 -0.0428018076
[186] -0.0282605410 0.0276833414 -0.0603448276 0.0529610014 -0.0225988701
[191] -0.0521809270 -0.0361925511 -0.0285484057 -0.0560704356 -0.0207655142
[196] -0.0457642516 0.0276833414 -0.0071239718 -0.0382440232 -0.0408169680
[201] 0.0044296788 0.0240471513 0.0453050786 -0.0265610438 0.0073381465
[206] -0.0766935895 -0.0609528487 0.0771359700 0.0174808406 0.0363943215
[211] -0.0403225806 -0.0489180408 0.0240471513 0.0840677966 -0.0134232320
[216] -0.0027433479 -0.0743450390 0.0243882326 0.0900813854 -0.0302023558
[221] -0.0361925511 -0.0552747525 0.0061524144 0.0758901198 -0.0149786469
[226] -0.0089749646 -0.0721366479 -0.0108543417 -0.0367726584 0.0066895572
[231] 0.1065699007 0.0226963618 0.0208204399 -0.0053012048 0.1403770767
[236] -0.0149786469 0.0409593592 0.0637566081 0.0986445415 0.0033977556
[241] -0.0302023558 0.0911537350 0.0191649555 0.0758901198 -0.0321716293
[246] -0.0510104831 0.0224476969 -0.0375820310 0.0142128408 -0.0356043522
[251] -0.0341683778 -0.0539728132 0.0018787251 -0.0966453136 0.0090996169
[256] -0.0187915885 0.0026790108 -0.0498575499 -0.0187915885 0.0260504202
[261] -0.0702179177 0.0942928040 -0.0531294881 -0.0436781609 -0.0265610438
[266] 0.0703239519 -0.0071239718 -0.0375820310 0.0271644333 0.0037279048
[271] 0.0438648590 0.0224476969 -0.0674151311 0.0009001153 -0.0788367979
[276] 0.0482624005 -0.0531294881 0.1403770767 -0.0356043522 0.0373909332
[281] -0.0246014493 0.0090996169 0.0142128408 -0.0510104831 0.0613074252
[286] -0.0046082949 0.0878623188 0.0467980296 0.0174825175 -0.0765785938
[291] 0.0018787251 0.0348153376 0.0409593592 -0.0059322034 0.0292874396
[296] -0.0009072658 -0.0089749646 0.0276833414 0.0795470497 -0.0510104831
[301] 0.0715570836 -0.0071239718 0.0394657976 0.0613074252 -0.0603448276
[306] -0.0131141808 -0.0246014493 -0.0302023558 -0.0071239718 0.0348153376
[311] 0.0558560192 -0.0356043522 -0.0317304241 0.0108323407 -0.0166634744
[316] 0.0637566081 -0.0112775240 -0.0656660413 0.0482624005 0.0379442982
[321] 0.0037279048 0.0226963618 -0.0457642516 -0.0187915885 -0.0669490854
[326] -0.0263461114 0.0260504202 -0.0408169680 -0.0027433479 0.0379442982
[331] 0.0437829470 0.0208204399 -0.0625210084 0.0108323407 -0.0076867914
[336] -0.0489180408 -0.0382440232 0.0409593592 0.0157677185 -0.1109688519
[341] -0.0227169468 -0.0168710805 -0.0149786469 -0.0265610438 0.0044296788
[346] -0.0285484057 -0.0112775240 -0.0302023558 0.0026790108 -0.0834244649
[351] 0.0140252454 0.0363943215 -0.0168710805 -0.0468523724 -0.0046082949
[356] -0.0467170478 -0.0603448276 0.0276833414 -0.0149786469 0.0108323407
[361] 0.0332068311 0.0332068311 0.0061524144 -0.0428018076 0.0383336530
[366] 0.0226963618 -0.0207655142 -0.0027433479 -0.1265233623 0.0157677185
[371] 0.0090996169 0.0308631787 -0.0652350571 -0.0053012048 -0.0436781609
[376] 0.0157677185 -0.0448136082 0.0174825175 -0.0989785044 -0.0539728132
[381] 0.0529610014 0.0276833414 -0.0089749646 0.1396910248 0.0208204399
[386] 0.0000000000 -0.0131141808 0.0140252454 -0.0630808697 0.0783546864
[391] -0.0521809270 -0.0285484057 -0.0166634744 0.0026790108 -0.0718513291
[396] -0.0263461114 0.0256192450 -0.0321716293 0.0044296788 0.0055476529
[401] -0.0674151311 0.0690649924 0.0422310413 0.0677795031 0.0090996169
[406] -0.0166634744 -0.0187915885 0.0558560192 -0.0574458683 0.0190767934
[411] 0.0379442982 -0.0356043522 -0.0970839260 0.0240471513 0.0467980296
[416] -0.1030789826 -0.0168710805 0.0453050786 0.0524900713 -0.0321716293
[421] 0.0878623188 -0.0112775240 -0.0478400296 -0.0094684743 -0.0071239718
[426] 0.0271644333 -0.0428018076 0.0409593592 0.0572601936 -0.0855402456
[431] -0.0560704356 -0.0718513291 0.0394657976 -0.0321716293 0.0260504202
[436] -0.0652350571 0.0271644333 -0.0009072658 -0.0168710805 -0.0094684743
[441] -0.0112775240 -0.0265610438 0.0437829470 -0.0321716293 0.0453050786
[446] 0.0739485883 -0.0046082949 0.0467980296 -0.0336538462 0.0044296788
[451] -0.0468523724 -0.0321716293 0.0018787251 0.0511078180 -0.0035064574
[456] -0.0721366479 0.0224476969 -0.0395869191 0.0224476969 0.0243882326
[461] -0.0246014493 -0.0035064574 0.0453050786 -0.0084251317 -0.0416189931
[466] 0.0424255297 -0.0302023558 -0.0457642516 -0.0302023558 0.0308631787
[471] 0.0394657976 -0.0017394829 -0.0674151311 -0.0089749646 0.0315683056
[476] -0.0094684743 0.0260504202 0.0108323407 0.0931354698 0.0095154156
[481] 0.0324110390 0.0044296788 -0.0468523724 0.0073381465 -0.0531294881
[486] -0.0207655142 0.0174808406 0.0292874396 -0.0346758968 -0.0207402180
[491] 0.0026790108 -0.0089749646 -0.0552747525 -0.0539728132 -0.0603448276
[496] 0.0586363766 0.0174808406 0.0599852344 0.0073381465 -0.0382440232
[501] 0.0026790108 -0.0302023558 0.0122531168 0.0292874396 0.0158613373
[506] 0.0878623188 -0.0053012048 -0.0089749646 0.0308631787 -0.0017394829
[511] -0.0207655142 0.0572601936 0.0613074252 -0.0789036545 -0.0017394829
[516] -0.0603448276 -0.0112775240 0.0125366330 0.0174808406 -0.0168710805
[521] 0.0363943215 0.0243882326 0.0703239519 -0.0674151311 0.0174808406
[526] 0.0044296788 0.1211900084 0.0090996169 -0.0065022114 -0.0265610438
[531] -0.0053012048 -0.0305634582 -0.0489180408 -0.0149786469 0.0061524144
[536] -0.0131141808 0.0438648590 0.0224476969 -0.0035064574 -0.0053012048
[541] -0.0302023558 -0.0263461114 -0.0341683778 -0.0017394829 -0.0625210084
[546] -0.0053012048 0.0727650728 -0.0285484057 0.0727650728 0.0142128408
[551] 0.0292874396 -0.0053012048 0.0125366330 -0.0382440232 -0.0168710805
[556] 0.0363943215 -0.0131141808 0.0095154156 0.0664667666 0.0379442982
[561] -0.0131141808 0.0276833414 0.0538461538 -0.0302023558 0.0108323407
[566] 0.0409593592 -0.0112775240 -0.0498575499 0.0009001153 -0.0282605410
[571] 0.0922023182 -0.0108543417 -0.0789036545 -0.0282605410 0.0544231807
[576] -0.0035064574 -0.0341683778 -0.0207655142 0.0142128408 -0.0989785044
[581] 0.0586363766 0.0061524144 -0.0468523724 -0.0187915885 -0.0350234168
[586] -0.0009072658 0.0044296788 0.1065699007 -0.0263461114 0.0931354698
[591] -0.0375820310 0.0677795031 -0.0468523724 0.0771359700 0.0348153376
[596] 0.0026790108 -0.0416189931 0.0538461538 0.0208204399 -0.0282605410
[601] -0.0543710021 0.0260504202 0.0965222532 0.0564821712 -0.0489180408
[606] 0.0260504202 -0.0336538462 -0.0282605410 0.0308631787 -0.0017394829
[611] 0.0599852344 -0.0071239718 -0.0436781609 -0.0071239718 0.0466651992
[616] 0.0157677185 0.0009001153 0.0586363766 0.0243882326 0.0409593592
[621] 0.0339315128 -0.0527052926 -0.0035064574 -0.0630808697 -0.0187915885
[626] 0.0026790108 0.0044296788 0.0191649555 -0.0131141808 -0.0035064574
[631] 0.0942928040 0.0900813854 0.0638743900 -0.0226696259 0.0192220715
[636] 0.0009001153 -0.0416189931 0.0108323407 0.0191649555 0.1094814039
[641] -0.0244589433 -0.1054347826 0.0354251012 -0.0677968823 0.0174808406
[646] 0.0558560192 0.0986445415 0.0348153376 -0.0131141808 -0.0388590327
[651] -0.0188890000 0.0315683056 0.0208204399 0.0467980296 -0.0609528487
[656] -0.0227169468 0.0831036016 0.0276833414 0.0677795031 -0.0246014493
[661] 0.0026790108 0.1104033170 0.0613074252 -0.0131141808 0.1025958512
[666] 0.0158613373 0.0174808406 0.0073381465 -0.0500160565 0.0260504202
[671] -0.0510104831 -0.0498575499 0.0623576809 -0.0743450390 0.0142128408
[676] -0.0084251317 0.0224476969 -0.0053012048 0.0677795031 0.0424255297
[681] 0.0308631787 0.0524900713 -0.0094684743 0.0626035978 0.0315683056
[686] -0.0341683778 -0.0246014493 -0.1078131820 -0.1061120543 -0.0131141808
[691] -0.0017394829 -0.0346758968 -0.0168710805 0.0409593592 -0.0226696259
[696] 0.0572601936 0.0018787251 -0.0947288006 -0.0519018205 0.0795470497
[701] -0.0395869191 0.0037279048 0.0090996169 0.0394657976 -0.0146985962
[706] 0.0260504202 0.0090996169 0.0224476969 -0.0565855160 0.0878623188
[711] 0.0511078180 -0.0403225806 -0.0226696259 -0.0282605410 0.0174808406
[716] 0.0308631787 0.0638743900 0.0026790108 0.0339315128 0.1065699007
[721] -0.0226696259 -0.0468523724 -0.0341683778 -0.0108543417 0.0332068311
[726] 0.0108323407 -0.0560704356 -0.0457642516 0.0368923112 -0.0510104831
[731] 0.0572601936 -0.0046082949 -0.0009072658 -0.0168710805 -0.0789036545
[736] -0.0108543417 0.0276833414 0.0174808406 -0.0588511903 -0.0855402456
[741] -0.0226696259 -0.0302023558 0.0125366330 -0.0966453136 0.0073381465
[746] 0.0256192450 -0.0009072658 -0.0395869191 0.0224476969 0.0651260504
[751] -0.0531294881 -0.0071239718 -0.0265610438 -0.0282605410 0.0466651992
[756] -0.0071239718 0.0158613373 0.0256192450 -0.0789036545 -0.0207402180
[761] 0.0078475430 0.0409593592 -0.0416189931 -0.0375820310 -0.0108543417
[766] -0.0188890000 -0.0588511903 0.0339315128 0.0524900713 -0.0519018205
[771] 0.0308631787 -0.0065022114 -0.0382440232 -0.0225988701 0.0240471513
[776] 0.0142128408 -0.0225988701 -0.0468523724 -0.0009072658 -0.0089749646
[781] -0.0149786469 0.0009001153 0.0424255297 0.0260504202 -0.0246014493
[786] -0.0395869191 0.0108323407 0.0044296788 -0.0457642516 0.0073381465
[791] 0.0191649555 -0.0265610438 0.0379442982 0.0900813854 -0.0361925511
[796] 0.0626035978 -0.0168710805 -0.0428018076 -0.0065022114 -0.0428018076
[801] -0.0108543417 0.0855386931 -0.0416189931 -0.0630808697 0.0226963618
[806] -0.0108543417 0.0482624005 0.0332068311 0.0482624005 0.0637566081
[811] -0.0346758968 -0.0448136082 -0.0428018076 -0.0567760165 0.0276833414
[816] -0.0321716293 0.0308631787 0.0452778988 0.0061524144 -0.0282605410
[821] 0.0125366330 -0.0089749646 -0.0089749646 -0.0416189931 0.0224476969
[826] 0.0482624005 0.0000000000 -0.0603448276 -0.0531294881 -0.0448136082
[831] -0.0246014493 -0.0009072658 0.0482624005 -0.0017394829 -0.0187915885
[836] -0.0226696259 0.0142128408 0.0424255297 -0.0603448276 0.0191649555
[841] -0.0669490854 0.0044296788 -0.0027433479 0.0664667666 -0.0448136082
[846] 0.0140252454 -0.0035064574 0.0009001153 0.0942928040 -0.0581945229
[851] -0.0094684743 0.0125366330 -0.0603448276 -0.0943357533 0.0613074252
[856] 0.0354251012 -0.0510104831 0.0424255297 0.0276833414 -0.0053012048
[861] -0.0741063644 -0.0811389844 -0.0009072658 -0.0416189931 -0.0531294881
[866] -0.0226696259 0.0332068311 -0.0053012048 0.0496987952 -0.0009072658
[871] 0.0090996169 0.0855386931 -0.0035064574 -0.0046082949 -0.0531294881
[876] -0.0765785938 0.0324110390 -0.0468523724 -0.0321716293 -0.0009072658
[881] 0.0044296788 0.0363943215 -0.0552747525 -0.0207655142 -0.0457642516
[886] -0.0009072658 0.0140252454 -0.0226696259 0.0125366330 -0.0168710805
[891] 0.0224476969 -0.0071239718 -0.0581945229 -0.0207402180 -0.0552747525
[896] -0.0053012048 -0.0246014493 0.0437829470 -0.0053012048 0.0191649555
[901] -0.0630808697 -0.0146985962 -0.0630808697 -0.0321716293 0.0090996169
[906] 0.0073381465 0.1186674431 -0.0674151311 -0.0468523724 0.0379442982
[911] 0.0037279048 0.0090996169 0.0108323407 0.0572601936 -0.0519018205
[916] 0.0558560192 0.0496987952 0.0061524144 -0.0226696259 -0.0168710805
[921] 0.0613074252 0.0409593592 -0.0498575499 0.0122531168 -0.0149786469
[926] -0.0103770089 0.0174808406 -0.0017394829 -0.0282605410 -0.0089749646
[931] 0.0009001153 -0.0246014493 0.0125366330 -0.0035064574 0.0125366330
[936] 0.0551766585 0.0108323407 -0.0531294881 -0.0127622062 -0.0071239718
[941] 0.0572601936 -0.0416189931 -0.0152180784 0.0544231807 0.0511078180
[946] -0.0065022114 0.0142128408 -0.0436781609 -0.0833991471 0.0467980296
[951] -0.0788367979 -0.0341683778 -0.0263461114 0.0324110390 -0.0321716293
[956] 0.0292874396 0.0572601936 -0.0765785938 0.0090996169 -0.0356043522
[961] -0.0674151311 0.0379442982 0.0224476969 -0.0285484057 0.0315683056
[966] -0.0489180408 0.0613074252 0.0260504202 -0.0089749646 -0.0321716293
[971] 0.0623576809 0.0354251012 0.0308631787 -0.0856836006 0.0140252454
[976] -0.0341683778 0.0292874396 0.0078475430 0.0000000000 0.0276833414
[981] -0.0539728132 -0.0900866813 -0.0207655142 0.0061524144 0.1186674431
[986] -0.0336538462 -0.0647226174 0.0324110390 0.0467980296 0.1075656202
[991] -0.0788367979 0.0111564042 -0.0149786469 -0.0170399221 0.0975963281
[996] 0.0292874396 0.0558560192 0.0018787251 0.0379442982 0.0208204399
$pvalue
[1] 0.605
$expectation
[1] 0.3179348
$statistics
[1] -0.02460145
$pvalue
[1] NaN
$expectation
[1] 0.3179348
$accuracy
[1] 1
$error.type
[1] "average"
$statistics
[1] -0.02460145
$pvalue
[1] 0.585273
$expectation
[1] 0.3179348
$statistics
[1] -0.02460145
$pvalue
[1] 0.520712
$expectation
[1] 0.3179348
jaccard documentation built on May 2, 2019, 12:51 p.m.
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Description Usage Arguments Details Value Optional arguments for method="bootstrap" Optional arguments for method="mca" See Also Examples
Description
Compute statistical significance of Jaccard/Tanimoto similarity coefficients between binary vectors, using four different methods.
Usage
1 2 | jaccard.test(x, y, method = "mca", px = NULL, py = NULL, verbose = TRUE,
...)
|
Arguments
x |
a binary vector (e.g., fingerprint) |
y |
a binary vector (e.g., fingerprint) |
method |
a method to compute a p-value ( |
px |
probability of successes in |
py |
probability of successes in |
verbose |
whether to print progress messages |
... |
optional arguments for specific computational methods |
Details
There exist four methods to compute p-values of Jaccard/Tanimoto similarity coefficients:
mca, bootstrap, asymptotic, and exact. This is simply a wrapper function for
corresponding four functions in this package: jaccard.test.mca, jaccard.test.bootstrap, jaccard.test.asymptotic, and jaccard.test.exact.
We recommand using either mca or bootstrap methods,
since the exact solution is slow for a moderately large vector and asymptotic approximation may be inaccurate depending on the input vector size.
The bootstrap method uses resampling with replacement binary vectors to compute a p-value (see optional arguments).
The mca method uses the measure concentration algorithm that estimates the multinomial distribution with a known error bound (specified by an optional argument accuracy).
Value
jaccard.test returns a list mainly consisting of
statistics |
centered Jaccard/Tanimoto similarity coefficient |
pvalue |
p-value |
expectation |
expectation |
Optional arguments for method="bootstrap"
- fix
whether to fix (i.e., not resample)
xand/ory- B
a total bootstrap iteration
- seed
a seed for a random number generator
Optional arguments for method="mca"
- accuracy
an error bound on approximating a multinomial distribution
- error.type
an error type on approximating a multinomial distribution (
"average","upper","lower")- seed
a seed for the random number generator.
See Also
jaccard.test.bootstrap jaccard.test.mca jaccard.test.exact jaccard.test.asymptotic
Examples
1 2 3 4 5 6 7 | set.seed(1234)
x = rbinom(100,1,.5)
y = rbinom(100,1,.5)
jaccard.test(x,y,method="bootstrap")
jaccard.test(x,y,method="mca")
jaccard.test(x,y,method="exact")
jaccard.test(x,y,method="asymptotic")
|
Example output
Bootstrap Procedures :
100 200 300 400 500 600 700 800 900 1000 $statistics
[1] -0.02460145
$statistics.null
[1] -0.0489180408 0.0044296788 0.0308631787 -0.0112775240 -0.0498575499
[6] 0.0807138179 -0.0652350571 0.0191649555 -0.0263461114 -0.0436781609
[11] 0.0026790108 0.0000000000 -0.0674151311 -0.0317304241 -0.0207655142
[16] -0.0498575499 0.0677795031 0.0276833414 0.0368923112 -0.0035064574
[21] -0.0009072658 0.0276833414 -0.0395869191 0.0424255297 0.0390355913
[26] 0.0174825175 -0.0207655142 -0.0789036545 -0.0609528487 0.0379442982
[31] -0.0089749646 0.0276833414 -0.0207402180 0.0055476529 -0.0674151311
[36] 0.0256192450 -0.0489180408 -0.0581945229 -0.0765785938 0.0354251012
[41] -0.0652350571 0.0795470497 -0.0149786469 -0.0149786469 0.0613074252
[46] 0.0379442982 -0.0674151311 -0.0282605410 -0.0071239718 -0.0721366479
[51] -0.1085311969 0.0174390102 0.0174808406 -0.0131141808 0.0073381465
[56] -0.0226696259 -0.0341683778 -0.0457642516 -0.0246014493 0.0453050786
[61] 0.0191649555 0.0394657976 -0.0263461114 -0.1013346163 0.0986445415
[66] 0.0613074252 -0.0146985962 0.0140252454 -0.0900866813 -0.0560704356
[71] -0.0539728132 0.0482624005 0.0308631787 0.0954213982 -0.0489180408
[76] 0.0240471513 -0.0395869191 0.0548935842 -0.0247216731 -0.0089749646
[81] 0.0409593592 -0.0247216731 0.0243882326 -0.0361925511 0.0240471513
[86] -0.0878012048 0.0190767934 -0.0035064574 0.0095154156 -0.0718513291
[91] 0.0108323407 0.0108323407 0.0061524144 -0.0375820310 0.0783546864
[96] 0.0758901198 -0.0017394829 0.0609284988 -0.0131141808 -0.0017394829
[101] 0.0452778988 -0.0188890000 -0.0531294881 -0.0149786469 -0.0856836006
[106] -0.0108543417 0.0613074252 -0.0246014493 0.0292874396 0.0496987952
[111] 0.0733137830 0.0677795031 -0.0539728132 0.0292874396 0.0086189206
[116] -0.0765785938 0.0818557266 0.0191649555 -0.0510104831 -0.0053012048
[121] 0.0867139959 -0.0089749646 0.0409593592 -0.0265610438 -0.0035064574
[126] -0.0027433479 -0.0424279105 0.0276833414 0.0000000000 0.1523107355
[131] -0.0436781609 0.0703239519 0.0009001153 -0.0468523724 0.0348153376
[136] 0.0256192450 0.0256192450 -0.0035064574 0.0271644333 -0.0341683778
[141] -0.0108543417 0.0298992890 -0.0560704356 0.0703239519 -0.0721366479
[146] -0.0369278973 -0.0457642516 0.0240471513 -0.0053012048 -0.0375820310
[151] -0.0428018076 -0.0027433479 -0.0609528487 0.0108323407 0.0276833414
[156] 0.0529610014 -0.0302023558 0.0467980296 -0.0089749646 -0.0833042596
[161] -0.0168710805 0.0339315128 0.0379442982 0.0009001153 0.0315683056
[166] 0.0308631787 0.0157677185 0.0453050786 0.0771359700 0.0026790108
[171] 0.0394657976 0.0108323407 0.0544231807 -0.0436781609 0.0111564042
[176] 0.0158613373 0.0125366330 0.0482624005 -0.0468523724 0.0409593592
[181] 0.0026790108 -0.0547273841 0.0174825175 0.0292874396 -0.0428018076
[186] -0.0282605410 0.0276833414 -0.0603448276 0.0529610014 -0.0225988701
[191] -0.0521809270 -0.0361925511 -0.0285484057 -0.0560704356 -0.0207655142
[196] -0.0457642516 0.0276833414 -0.0071239718 -0.0382440232 -0.0408169680
[201] 0.0044296788 0.0240471513 0.0453050786 -0.0265610438 0.0073381465
[206] -0.0766935895 -0.0609528487 0.0771359700 0.0174808406 0.0363943215
[211] -0.0403225806 -0.0489180408 0.0240471513 0.0840677966 -0.0134232320
[216] -0.0027433479 -0.0743450390 0.0243882326 0.0900813854 -0.0302023558
[221] -0.0361925511 -0.0552747525 0.0061524144 0.0758901198 -0.0149786469
[226] -0.0089749646 -0.0721366479 -0.0108543417 -0.0367726584 0.0066895572
[231] 0.1065699007 0.0226963618 0.0208204399 -0.0053012048 0.1403770767
[236] -0.0149786469 0.0409593592 0.0637566081 0.0986445415 0.0033977556
[241] -0.0302023558 0.0911537350 0.0191649555 0.0758901198 -0.0321716293
[246] -0.0510104831 0.0224476969 -0.0375820310 0.0142128408 -0.0356043522
[251] -0.0341683778 -0.0539728132 0.0018787251 -0.0966453136 0.0090996169
[256] -0.0187915885 0.0026790108 -0.0498575499 -0.0187915885 0.0260504202
[261] -0.0702179177 0.0942928040 -0.0531294881 -0.0436781609 -0.0265610438
[266] 0.0703239519 -0.0071239718 -0.0375820310 0.0271644333 0.0037279048
[271] 0.0438648590 0.0224476969 -0.0674151311 0.0009001153 -0.0788367979
[276] 0.0482624005 -0.0531294881 0.1403770767 -0.0356043522 0.0373909332
[281] -0.0246014493 0.0090996169 0.0142128408 -0.0510104831 0.0613074252
[286] -0.0046082949 0.0878623188 0.0467980296 0.0174825175 -0.0765785938
[291] 0.0018787251 0.0348153376 0.0409593592 -0.0059322034 0.0292874396
[296] -0.0009072658 -0.0089749646 0.0276833414 0.0795470497 -0.0510104831
[301] 0.0715570836 -0.0071239718 0.0394657976 0.0613074252 -0.0603448276
[306] -0.0131141808 -0.0246014493 -0.0302023558 -0.0071239718 0.0348153376
[311] 0.0558560192 -0.0356043522 -0.0317304241 0.0108323407 -0.0166634744
[316] 0.0637566081 -0.0112775240 -0.0656660413 0.0482624005 0.0379442982
[321] 0.0037279048 0.0226963618 -0.0457642516 -0.0187915885 -0.0669490854
[326] -0.0263461114 0.0260504202 -0.0408169680 -0.0027433479 0.0379442982
[331] 0.0437829470 0.0208204399 -0.0625210084 0.0108323407 -0.0076867914
[336] -0.0489180408 -0.0382440232 0.0409593592 0.0157677185 -0.1109688519
[341] -0.0227169468 -0.0168710805 -0.0149786469 -0.0265610438 0.0044296788
[346] -0.0285484057 -0.0112775240 -0.0302023558 0.0026790108 -0.0834244649
[351] 0.0140252454 0.0363943215 -0.0168710805 -0.0468523724 -0.0046082949
[356] -0.0467170478 -0.0603448276 0.0276833414 -0.0149786469 0.0108323407
[361] 0.0332068311 0.0332068311 0.0061524144 -0.0428018076 0.0383336530
[366] 0.0226963618 -0.0207655142 -0.0027433479 -0.1265233623 0.0157677185
[371] 0.0090996169 0.0308631787 -0.0652350571 -0.0053012048 -0.0436781609
[376] 0.0157677185 -0.0448136082 0.0174825175 -0.0989785044 -0.0539728132
[381] 0.0529610014 0.0276833414 -0.0089749646 0.1396910248 0.0208204399
[386] 0.0000000000 -0.0131141808 0.0140252454 -0.0630808697 0.0783546864
[391] -0.0521809270 -0.0285484057 -0.0166634744 0.0026790108 -0.0718513291
[396] -0.0263461114 0.0256192450 -0.0321716293 0.0044296788 0.0055476529
[401] -0.0674151311 0.0690649924 0.0422310413 0.0677795031 0.0090996169
[406] -0.0166634744 -0.0187915885 0.0558560192 -0.0574458683 0.0190767934
[411] 0.0379442982 -0.0356043522 -0.0970839260 0.0240471513 0.0467980296
[416] -0.1030789826 -0.0168710805 0.0453050786 0.0524900713 -0.0321716293
[421] 0.0878623188 -0.0112775240 -0.0478400296 -0.0094684743 -0.0071239718
[426] 0.0271644333 -0.0428018076 0.0409593592 0.0572601936 -0.0855402456
[431] -0.0560704356 -0.0718513291 0.0394657976 -0.0321716293 0.0260504202
[436] -0.0652350571 0.0271644333 -0.0009072658 -0.0168710805 -0.0094684743
[441] -0.0112775240 -0.0265610438 0.0437829470 -0.0321716293 0.0453050786
[446] 0.0739485883 -0.0046082949 0.0467980296 -0.0336538462 0.0044296788
[451] -0.0468523724 -0.0321716293 0.0018787251 0.0511078180 -0.0035064574
[456] -0.0721366479 0.0224476969 -0.0395869191 0.0224476969 0.0243882326
[461] -0.0246014493 -0.0035064574 0.0453050786 -0.0084251317 -0.0416189931
[466] 0.0424255297 -0.0302023558 -0.0457642516 -0.0302023558 0.0308631787
[471] 0.0394657976 -0.0017394829 -0.0674151311 -0.0089749646 0.0315683056
[476] -0.0094684743 0.0260504202 0.0108323407 0.0931354698 0.0095154156
[481] 0.0324110390 0.0044296788 -0.0468523724 0.0073381465 -0.0531294881
[486] -0.0207655142 0.0174808406 0.0292874396 -0.0346758968 -0.0207402180
[491] 0.0026790108 -0.0089749646 -0.0552747525 -0.0539728132 -0.0603448276
[496] 0.0586363766 0.0174808406 0.0599852344 0.0073381465 -0.0382440232
[501] 0.0026790108 -0.0302023558 0.0122531168 0.0292874396 0.0158613373
[506] 0.0878623188 -0.0053012048 -0.0089749646 0.0308631787 -0.0017394829
[511] -0.0207655142 0.0572601936 0.0613074252 -0.0789036545 -0.0017394829
[516] -0.0603448276 -0.0112775240 0.0125366330 0.0174808406 -0.0168710805
[521] 0.0363943215 0.0243882326 0.0703239519 -0.0674151311 0.0174808406
[526] 0.0044296788 0.1211900084 0.0090996169 -0.0065022114 -0.0265610438
[531] -0.0053012048 -0.0305634582 -0.0489180408 -0.0149786469 0.0061524144
[536] -0.0131141808 0.0438648590 0.0224476969 -0.0035064574 -0.0053012048
[541] -0.0302023558 -0.0263461114 -0.0341683778 -0.0017394829 -0.0625210084
[546] -0.0053012048 0.0727650728 -0.0285484057 0.0727650728 0.0142128408
[551] 0.0292874396 -0.0053012048 0.0125366330 -0.0382440232 -0.0168710805
[556] 0.0363943215 -0.0131141808 0.0095154156 0.0664667666 0.0379442982
[561] -0.0131141808 0.0276833414 0.0538461538 -0.0302023558 0.0108323407
[566] 0.0409593592 -0.0112775240 -0.0498575499 0.0009001153 -0.0282605410
[571] 0.0922023182 -0.0108543417 -0.0789036545 -0.0282605410 0.0544231807
[576] -0.0035064574 -0.0341683778 -0.0207655142 0.0142128408 -0.0989785044
[581] 0.0586363766 0.0061524144 -0.0468523724 -0.0187915885 -0.0350234168
[586] -0.0009072658 0.0044296788 0.1065699007 -0.0263461114 0.0931354698
[591] -0.0375820310 0.0677795031 -0.0468523724 0.0771359700 0.0348153376
[596] 0.0026790108 -0.0416189931 0.0538461538 0.0208204399 -0.0282605410
[601] -0.0543710021 0.0260504202 0.0965222532 0.0564821712 -0.0489180408
[606] 0.0260504202 -0.0336538462 -0.0282605410 0.0308631787 -0.0017394829
[611] 0.0599852344 -0.0071239718 -0.0436781609 -0.0071239718 0.0466651992
[616] 0.0157677185 0.0009001153 0.0586363766 0.0243882326 0.0409593592
[621] 0.0339315128 -0.0527052926 -0.0035064574 -0.0630808697 -0.0187915885
[626] 0.0026790108 0.0044296788 0.0191649555 -0.0131141808 -0.0035064574
[631] 0.0942928040 0.0900813854 0.0638743900 -0.0226696259 0.0192220715
[636] 0.0009001153 -0.0416189931 0.0108323407 0.0191649555 0.1094814039
[641] -0.0244589433 -0.1054347826 0.0354251012 -0.0677968823 0.0174808406
[646] 0.0558560192 0.0986445415 0.0348153376 -0.0131141808 -0.0388590327
[651] -0.0188890000 0.0315683056 0.0208204399 0.0467980296 -0.0609528487
[656] -0.0227169468 0.0831036016 0.0276833414 0.0677795031 -0.0246014493
[661] 0.0026790108 0.1104033170 0.0613074252 -0.0131141808 0.1025958512
[666] 0.0158613373 0.0174808406 0.0073381465 -0.0500160565 0.0260504202
[671] -0.0510104831 -0.0498575499 0.0623576809 -0.0743450390 0.0142128408
[676] -0.0084251317 0.0224476969 -0.0053012048 0.0677795031 0.0424255297
[681] 0.0308631787 0.0524900713 -0.0094684743 0.0626035978 0.0315683056
[686] -0.0341683778 -0.0246014493 -0.1078131820 -0.1061120543 -0.0131141808
[691] -0.0017394829 -0.0346758968 -0.0168710805 0.0409593592 -0.0226696259
[696] 0.0572601936 0.0018787251 -0.0947288006 -0.0519018205 0.0795470497
[701] -0.0395869191 0.0037279048 0.0090996169 0.0394657976 -0.0146985962
[706] 0.0260504202 0.0090996169 0.0224476969 -0.0565855160 0.0878623188
[711] 0.0511078180 -0.0403225806 -0.0226696259 -0.0282605410 0.0174808406
[716] 0.0308631787 0.0638743900 0.0026790108 0.0339315128 0.1065699007
[721] -0.0226696259 -0.0468523724 -0.0341683778 -0.0108543417 0.0332068311
[726] 0.0108323407 -0.0560704356 -0.0457642516 0.0368923112 -0.0510104831
[731] 0.0572601936 -0.0046082949 -0.0009072658 -0.0168710805 -0.0789036545
[736] -0.0108543417 0.0276833414 0.0174808406 -0.0588511903 -0.0855402456
[741] -0.0226696259 -0.0302023558 0.0125366330 -0.0966453136 0.0073381465
[746] 0.0256192450 -0.0009072658 -0.0395869191 0.0224476969 0.0651260504
[751] -0.0531294881 -0.0071239718 -0.0265610438 -0.0282605410 0.0466651992
[756] -0.0071239718 0.0158613373 0.0256192450 -0.0789036545 -0.0207402180
[761] 0.0078475430 0.0409593592 -0.0416189931 -0.0375820310 -0.0108543417
[766] -0.0188890000 -0.0588511903 0.0339315128 0.0524900713 -0.0519018205
[771] 0.0308631787 -0.0065022114 -0.0382440232 -0.0225988701 0.0240471513
[776] 0.0142128408 -0.0225988701 -0.0468523724 -0.0009072658 -0.0089749646
[781] -0.0149786469 0.0009001153 0.0424255297 0.0260504202 -0.0246014493
[786] -0.0395869191 0.0108323407 0.0044296788 -0.0457642516 0.0073381465
[791] 0.0191649555 -0.0265610438 0.0379442982 0.0900813854 -0.0361925511
[796] 0.0626035978 -0.0168710805 -0.0428018076 -0.0065022114 -0.0428018076
[801] -0.0108543417 0.0855386931 -0.0416189931 -0.0630808697 0.0226963618
[806] -0.0108543417 0.0482624005 0.0332068311 0.0482624005 0.0637566081
[811] -0.0346758968 -0.0448136082 -0.0428018076 -0.0567760165 0.0276833414
[816] -0.0321716293 0.0308631787 0.0452778988 0.0061524144 -0.0282605410
[821] 0.0125366330 -0.0089749646 -0.0089749646 -0.0416189931 0.0224476969
[826] 0.0482624005 0.0000000000 -0.0603448276 -0.0531294881 -0.0448136082
[831] -0.0246014493 -0.0009072658 0.0482624005 -0.0017394829 -0.0187915885
[836] -0.0226696259 0.0142128408 0.0424255297 -0.0603448276 0.0191649555
[841] -0.0669490854 0.0044296788 -0.0027433479 0.0664667666 -0.0448136082
[846] 0.0140252454 -0.0035064574 0.0009001153 0.0942928040 -0.0581945229
[851] -0.0094684743 0.0125366330 -0.0603448276 -0.0943357533 0.0613074252
[856] 0.0354251012 -0.0510104831 0.0424255297 0.0276833414 -0.0053012048
[861] -0.0741063644 -0.0811389844 -0.0009072658 -0.0416189931 -0.0531294881
[866] -0.0226696259 0.0332068311 -0.0053012048 0.0496987952 -0.0009072658
[871] 0.0090996169 0.0855386931 -0.0035064574 -0.0046082949 -0.0531294881
[876] -0.0765785938 0.0324110390 -0.0468523724 -0.0321716293 -0.0009072658
[881] 0.0044296788 0.0363943215 -0.0552747525 -0.0207655142 -0.0457642516
[886] -0.0009072658 0.0140252454 -0.0226696259 0.0125366330 -0.0168710805
[891] 0.0224476969 -0.0071239718 -0.0581945229 -0.0207402180 -0.0552747525
[896] -0.0053012048 -0.0246014493 0.0437829470 -0.0053012048 0.0191649555
[901] -0.0630808697 -0.0146985962 -0.0630808697 -0.0321716293 0.0090996169
[906] 0.0073381465 0.1186674431 -0.0674151311 -0.0468523724 0.0379442982
[911] 0.0037279048 0.0090996169 0.0108323407 0.0572601936 -0.0519018205
[916] 0.0558560192 0.0496987952 0.0061524144 -0.0226696259 -0.0168710805
[921] 0.0613074252 0.0409593592 -0.0498575499 0.0122531168 -0.0149786469
[926] -0.0103770089 0.0174808406 -0.0017394829 -0.0282605410 -0.0089749646
[931] 0.0009001153 -0.0246014493 0.0125366330 -0.0035064574 0.0125366330
[936] 0.0551766585 0.0108323407 -0.0531294881 -0.0127622062 -0.0071239718
[941] 0.0572601936 -0.0416189931 -0.0152180784 0.0544231807 0.0511078180
[946] -0.0065022114 0.0142128408 -0.0436781609 -0.0833991471 0.0467980296
[951] -0.0788367979 -0.0341683778 -0.0263461114 0.0324110390 -0.0321716293
[956] 0.0292874396 0.0572601936 -0.0765785938 0.0090996169 -0.0356043522
[961] -0.0674151311 0.0379442982 0.0224476969 -0.0285484057 0.0315683056
[966] -0.0489180408 0.0613074252 0.0260504202 -0.0089749646 -0.0321716293
[971] 0.0623576809 0.0354251012 0.0308631787 -0.0856836006 0.0140252454
[976] -0.0341683778 0.0292874396 0.0078475430 0.0000000000 0.0276833414
[981] -0.0539728132 -0.0900866813 -0.0207655142 0.0061524144 0.1186674431
[986] -0.0336538462 -0.0647226174 0.0324110390 0.0467980296 0.1075656202
[991] -0.0788367979 0.0111564042 -0.0149786469 -0.0170399221 0.0975963281
[996] 0.0292874396 0.0558560192 0.0018787251 0.0379442982 0.0208204399
$pvalue
[1] 0.605
$expectation
[1] 0.3179348
$statistics
[1] -0.02460145
$pvalue
[1] NaN
$expectation
[1] 0.3179348
$accuracy
[1] 1
$error.type
[1] "average"
$statistics
[1] -0.02460145
$pvalue
[1] 0.585273
$expectation
[1] 0.3179348
$statistics
[1] -0.02460145
$pvalue
[1] 0.520712
$expectation
[1] 0.3179348
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