steps2_4: steps2_4

In CONFESS: Cell OrderiNg by FluorEScence Signal

Description

example results of the Fluo_CV_modeling function

Usage

data("steps2_4")

Format

The format is: List of 2 $ Batch5 :List of 39 ..$ index : int [1:246] 1 2 3 4 5 6 7 8 9 10 ... ..$ samples : chr [1:246] "1772-062-248_A01" "1772-062-248_A03" "1772-062-248_A04" "1772-062-248_A06" ... ..$ batch : chr [1:246, 1:2] "1772-062-248" "1772-062-248" "1772-062-248" "1772-062-248" ... ..$ Size : num [1:246] 31 19 152 43 59 21 72 81 31 56 ... ..$ corrected.exprs : num [1:246, 1:2] 26.64 9.5 24.84 15.43 8.04 ... .. ..- attr(*, "dimnames")=List of 2 .. .. ..$ : NULL .. .. ..$ : chr [1:2] "Green" "Red" ..$ corrected.transformed.exprs : num [1:246, 1:2] 3.28 2.25 3.21 2.74 2.08 ... .. ..- attr(*, "dimnames")=List of 2 .. .. ..$ : NULL .. .. ..$ : chr [1:2] "Green" "Red" ..$ correctedAreas : num [1:246] 3.43 2.94 5.02 3.76 4.08 ... ..$ areacut : num 49 ..$ transformation : chr "log" ..$ image.type : chr [1:3] "BF" "Green" "Red" ..$ dateIndex : chr "ThuMar2416:02:312016" ..$ single.batch.analysis : num 5 ..$ BGmethod : chr "normexp" ..$ maxMix : num 3 ..$ prior.pi : num 0.1 ..$ flex.reps : num 5 ..$ flexmethod : chr "BIC" ..$ RNG : num 999 ..$ GAPgroups : num [1:246, 1:2] 6 4 5 4 4 4 1 4 2 4 ... ..$ clusterFUN : chr "kmeans" ..$ normal.sigma : num 200 ..$ centroids : num [1:6, 1:3] 3 6 5 4 2 ... .. ..- attr(*, "dimnames")=List of 2 .. .. ..$ : NULL .. .. ..$ : chr [1:3] "Cluster" "Green" "Red" ..$ fixClusters : num 0 ..$ Kmax : num 15 ..$ B.kmeans : num 5 ..$ Path : num [1:6] 3 4 6 2 1 5 ..$ Path.type : chr [1:2] "circular" "clockwise" ..$ UpdatedPath : num [1:6] 1 2 3 4 5 6 ..$ DataSorts : chr [1:246, 1:2] "-0.0524253515714255" "0.0573114934260645" "-0.0658947839764907" "-0.10952104926524" ... .. ..- attr(*, "dimnames")=List of 2 .. .. ..$ : NULL .. .. ..$ : chr [1:2] "Distance" "Pseudotime" ..$ DDHFupdate : logi FALSE ..$ corrected.VStransformed.exprs: num [1:246, 1:2] 90.2 86.4 88.6 88.1 86.4 ... ..$ VSmethod : chr "DDHFmv" ..$ Progression : num [1:246, 1:2] 110 58 229 64 68 51 215 76 166 85 ... .. ..- attr(*, "dimnames")=List of 2 .. .. ..$ : NULL .. .. ..$ : chr [1:2] "Pseudotime" "transf.Difference" ..$ Updated.groups : num [1:246] 3 3 6 3 3 3 5 3 4 3 ... ..$ CPs : num [1:5] 22 38 118 169 222 ..$ CPmethod : chr "ECP" ..$ CPsig : num 0.01 ..$ CPgroups : num 5 ..$ CPmingroup : num 15 $ init.path: chr [1:2] "bottom/left" "bottom/left"

Value

cross validation modeling

CONFESS documentation built on Nov. 8, 2020, 6:05 p.m.