/usr/lib/R/site-library/BiocGenerics/NAMESPACE is in r-bioc-biocgenerics 0.8.0-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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import(graphics)
import(stats)
import(parallel)
exportClasses(
## from R/S3-classes-as-S4-classes.R:
connection,
file, url, gzfile, bzfile, unz, pipe,
fifo, sockconn, terminal, textConnection,
gzcon,
characterORconnection,
AsIs
#table, xtabs
)
### ==========================================================================
### Functions defined in base R and explicitly promoted to generics in the
### BiocGenerics package
### --------------------------------------------------------------------------
### Generics for functions defined in package base:
export(
## from R/append.R:
append,
## from R/as.data.frame.R:
as.data.frame,
## from R/as.vector.R:
as.vector,
## from R/cbind.R:
cbind, rbind,
## from R/duplicated.R:
duplicated, anyDuplicated,
## from R/eval.R:
eval, evalq,
## from R/Extremes.R:
pmax, pmin, pmax.int, pmin.int,
## from R/funprog.R:
Reduce, Filter, Find, Map, Position,
## from R/get.R:
get, mget,
## from R/is.unsorted.R:
is.unsorted,
## from R/lapply.R:
lapply, sapply,
## from R/mapply.R:
mapply,
## from R/match.R:
match,
## from R/nrow.R:
nrow, ncol, NROW, NCOL,
## from R/order.R:
order,
## from R/paste.R:
paste,
## from R/rank.R:
rank,
## from R/rep.R:
rep.int,
## from R/row_colnames.R:
rownames, colnames,
## from R/sets.R:
union, intersect, setdiff,
## from R/sort.R:
sort,
## from R/table.R:
table,
## from R/tapply.R:
tapply,
## from R/unique.R:
unique,
## from R/unlist.R:
unlist
)
### Generics for functions defined in package graphics:
export(
## from R/boxplot.R:
boxplot,
## from R/image.R:
image
)
### Generics for functions defined in package stats:
export(
## from R/density.R:
density,
## from R/residuals.R:
residuals,
## from R/weights.R:
weights,
## from R/xtabs.R:
xtabs
)
### Generics for functions defined in package parallel:
export(
## from R/clusterApply.R:
clusterCall, clusterApply, clusterApplyLB,
clusterEvalQ, clusterExport,
clusterMap, clusterSplit,
parLapply, parSapply, parApply, parRapply, parCapply,
parLapplyLB, parSapplyLB
)
### ==========================================================================
### Bioconductor specific generics and their methods
### --------------------------------------------------------------------------
export(
## from R/annotation.R:
annotation, "annotation<-",
## from R/combine.R:
combine,
## from R/normalize.R:
normalize,
## from R/strand.R:
strand, "strand<-",
## from R/updateObject.R:
updateObject,
updateObjectFromSlots,
getObjectSlots
)
exportMethods(
## from R/combine.R:
combine,
## from R/updateObject.R:
updateObject,
## from R/dge.R:
counts, "counts<-",
design, "design<-",
dispTable, "dispTable<-",
sizeFactors, "sizeFactors<-",
conditions, "conditions<-",
estimateSizeFactors,
estimateDispersions,
plotDispEsts,
plotMA
)
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