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Last data update: 2014.03.03 |
Check if MRexperiment or matrix and return matrixDescriptionFunction to check if object is a MRexperiment class or matrix UsagereturnAppropriateObj(obj, norm, log, sl = 1000) Arguments
ValueMatrix Examplesdata(lungData) head(returnAppropriateObj(lungData,norm=FALSE,log=FALSE)) Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
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> library(metagenomeSeq)
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, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table, tapply, union,
unique, unsplit
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: limma
Attaching package: 'limma'
The following object is masked from 'package:BiocGenerics':
plotMA
Loading required package: glmnet
Loading required package: Matrix
Loading required package: foreach
Loaded glmnet 2.0-5
Loading required package: RColorBrewer
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/metagenomeSeq/returnAppropriateObj.Rd_%03d_medium.png", width=480, height=480)
> ### Name: returnAppropriateObj
> ### Title: Check if MRexperiment or matrix and return matrix
> ### Aliases: returnAppropriateObj
>
> ### ** Examples
>
>
> data(lungData)
> head(returnAppropriateObj(lungData,norm=FALSE,log=FALSE))
CHK_6467_E3B11_BRONCH2_PREWASH_V1V2 CHK_6467_E3B11_OW_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B08_OW_V1V2 CHK_6467_E3B07_BAL_A_V1V2 CHK_6467_E3B11_BAL_A_V1V2
1 0 0 0
2 0 0 0
3 0 0 0
4 0 0 0
5 0 0 0
6 0 0 0
CHK_6467_E3B09_OP_V1V2 CHK_6467_E3B08_BRONCH1_PREWASH_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B11_BRONCH1_POSTWASH_V1V2 CHK_6467_E3B11_OP_V1V2
1 0 1
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B10_BRONCH1_TIPSWAB_V1V2 CHK_6467_E3B07_BAL_B_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B08_BAL_A_V1V2 CHK_6467_E3B11_PSB_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_SAL1_11_5_209_11_18_V1V2 CHK_6467_E3B10_OW_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_SAL1_11_4_201_11_18_V1V2 CHK_6467_E3B09_BRONCH1_POSTWASH_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B10_PSB_V1V2 CHK_6467_E3B08_BRONCH1_TIPSWAB_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B06_BRONCH1_PREWASH_V1V2 CHK_6467_E3B10_BAL_1STRETURN_V1V2
1 0 0
2 0 0
3 0 1
4 0 0
5 0 0
6 0 0
CHK_6467_SS1_11_4_272_11_30_V1V2 CHK_6467_E3B08_BRONCH2_PREWASH_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B10_NP_V1V2 CHK_6467_H2O1_11_5_208_11_18_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 1 0
6 0 0
CHK_6467_E3B11_BAL_B_V1V2 CHK_6467_E3B11_BRONCH1_TIPSWAB_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B08_BAL_1STRETURN_V1V2 CHK_6467_E3B08_NP_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B10_BRONCH2_PREWASH_V1V2 CHK_6467_E3B09_NP_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_H2O1_11_2_280_11_30_V1V2 CHK_6467_E3B07_PSB_V1V2
1 0 0
2 0 1
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B07_NP_V1V2 CHK_6467_E3B09_BRONCH1_TIPSWAB_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B06_BRONCH1_POSTWASH_V1V2 CHK_6467_E3B07_BAL_1STRETURN_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B10_BRONCH1_PREWASH_V1V2 CHK_6467_E3B10_BRONCH1_POSTWASH_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B11_BRONCH1_PREWASH_V1V2 CHK_6467_E3B09_PSB_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B09_BRONCH1_PREWASH_V1V2 CHK_6467_E3B07_BRONCH2_PREWASH_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_PSBPLASTIC_12_6_285_12_6_V1V2 CHK_6467_E3B08_BRONCH1_POSTWASH_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B06_BRONCH1_TIPSWAB_V1V2 CHK_6467_PSBMETAL_12_6_286_12_6_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B11_NP_V1V2 CHK_6467_E3B10_OP_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B09_BAL_1STRETURN_V1V2 CHK_6467_E3B06_NP_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B09_BRONCH2_PREWASH_V1V2 CHK_6467_E3B06_BAL_A_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B06_BAL_1STRETURN_V1V2 CHK_6467_E3B07_OP_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B06_BAL_B_V1V2 CHK_6467_E3B11_BAL_1STRETURN_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B07_BRONCH1_TIPSWAB_V1V2 CHK_6467_H2O1_11_4_222_11_18_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B10_BAL_A_V1V2 CHK_6467_SS1_11_2_253_11_30_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B06_BRONCH2_PREWASH_V1V2 CHK_6467_E3B06_OW_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B07_BRONCH1_POSTWASH_V1V2 CHK_6467_E3B07_BRONCH1_PREWASH_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B08_OP_V1V2 CHK_6467_E3B10_BAL_B_V1V2 CHK_6467_E3B06_OP_V1V2
1 0 0 0
2 0 0 0
3 0 0 0
4 0 0 0
5 0 0 0
6 0 0 0
CHK_6467_E3B07_OW_V1V2 CHK_6467_H2O1_11_2_223_11_29_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B09_BAL_B_V1V2 CHK_6467_H201_12_6_281_12_6_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B08_PSB_V1V2 CHK_6467_E3B08_BAL_B_V1V2 CHK_6467_E3B06_PSB_V1V2
1 0 0 0
2 0 0 0
3 0 0 0
4 0 1 0
5 0 0 0
6 0 0 1
CHK_6467_E3B09_OW_V1V2 CHK_6467_SAL1_11_2_224_11_29_V1V2
1 0 0
2 0 0
3 0 0
4 0 0
5 0 0
6 0 0
CHK_6467_E3B09_BAL_A_V1V2
1 0
2 0
3 0
4 0
5 0
6 0
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> dev.off()
null device
1
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Created & Maintained by Osamu Ogasawara (osamu.ogasawara@gmail.com) and