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Originally, peak sets do not have a
name
column. This means that whengetFeatures()
is called, it returnsNULL
because noname
column is present. This makes it impossible to useplotEmbedding()
oraddModuleScores()
with peaks. To address this, I've added a line that automatically names peaks as seqname_peakIndex such as "chr1_peak1".I dont think that this will break anything downstream but would be good to have a second opinion
addressing #1421 and #308 (comment)