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Dealing with 'NA' or absent entrezids for rownames in voom object #12

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s-canchi opened this issue May 4, 2018 · 0 comments
Open

Dealing with 'NA' or absent entrezids for rownames in voom object #12

s-canchi opened this issue May 4, 2018 · 0 comments

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@s-canchi
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s-canchi commented May 4, 2018 •
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Within the voom Elist, I have rownames defined as gene names. Since the required input is entrezids, I added a gene list slot to the voom object. However the number fo entrezids < gene names (16451 vs 16573). When I replace the missing values with either 'NA' or '0', it gives an error stating duplicate row name:
Error in row.names<-.data.frame(*tmp*, value = value) : duplicate 'row.names' are not allowed

Is there a way to neglect 'NA' values within the egsea command ? Else how to subset the voom Elist to contain only non-missing values ?
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