generateWeights: Generate Weights
In armbrustlab/manta: Microbial Assemblage Normalized Transcript Analysis

Description Usage Arguments Value See Also Examples

Because the manta plot uses integer count data, many of the points overlap and hide a large portion of the data. This function allows one to apply a weighting scheme to jitter points out from under each other both to show the density and expose the content of their pies (if applicable).

1	generateWeights(x, w.clmn, agg.clmn, cond.clmn, ct.clmns=NULL)

`x`	an alignment dataframe
`w.clmn`	a string corresponding to a column with weight data
`agg.clmn`	a string corresponding to a column with an aggregation index.
`cond.clmn`	a string corresponding to a column with condition factor
`ct.clmns`	a string corresponding to a column with count data

a 2 by n weight matrix

manta

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align.path <- system.file("extdata","PapaGO-BLAST.results-diatoms.tab", package="manta")
a <- read.delim(align.path, stringsAsFactors=FALSE)
w <- generateWeights(a, 'what_e_value', 'what_def', 'treatment')