This function can be used to exclude genes with low standard deviation.
object of the class ExpressionSet.
threshold for minimum standard deviation. If
the standard deviation of a gene's expression is smaller than
The function produces an object of the ExpressionSet class. It is the
same as the input
eset object, except for the genes excluded.
As soft clustering is noise robust, pre-filtering can usually be avoided. However, if the number of genes with small expression changes is large, such pre-filtering may be necessary to reduce noise.
Matthias E. Futschik (http://itb.biologie.hu-berlin.de/~futschik)
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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, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, cbind, colMeans, colSums, 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, rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which, which.max, which.min Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. Loading required package: e1071 Warning message: no DISPLAY variable so Tk is not available 49 genes excluded. 1096 genes excluded.
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