A graph representing the apoptosis pathway from
KEGG, as well as a data.frame of attributes for use in plotting the
Rgraphviz and a list to compare the nodes with their
respective LocusLink IDs.
apopGraph data set contains three objects:
The first is
apopGraph, which is an object of class
graph-NEL and represents the hsa04210 graph from
The second is
apopAttrs, which is a data.frame with two columns,
and a row for every node in
apopGraph. The first column lists
what color the node is represented with on the
KEGG site. The
second column lists the type of the node - either
text. Most nodes are of type
genesym as they represent
genes, but some of the nodes in the
KEGG graph were not genes
and thus those nodes are of type
apopLocusLink is a named list where the names
correspond to the node names in
apopGraph. The values of the
list are the LocusLink IDs that correspond to that node in the KEGG graph.
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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, basename, cbind, colMeans, colSums, colnames, dirname, 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 Loading required package: Rgraphviz Loading required package: grid
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