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When using meltAssay to convert a SummarizedExperiment object, the central data infrastructure for microbiome analysis in Bioconductor, into long data.frame, I use the following lines according to the instructions in the book:

tse <- transformSamples(tse, method="relabundance")

molten_tse <- meltAssay(tse,
                        add_row_data = TRUE,
                        add_col_data = TRUE,
                        assay_name = "relabundance")
molten_tse

However, I get the following error:

Error in .melt_assay(x, abund_values, feature_name, sample_name, ...) : unused argument (assay_name = "relabundance")

Asala Mahajna
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    Can you say exactly what Bioconductor package you are using and what version of that package? It's easier to help you if you provide a [reproducible example](https://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example) with sample input and desired output that can be used to test and verify possible solutions. – MrFlick Jul 21 '22 at 13:46

1 Answers1

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Use the following syntax instead: (abund_values instead of assay_names. There seems to be an error in the book)

molten_tse <- meltAssay(tse,
                        add_row_data = TRUE,
                        add_col_data = TRUE,
                        abund_values  = "relabundance")
Asala Mahajna
  • 21
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