I have recently started to work with the "qsea" package in r for differential methylation analysis between two groups with data derived from MeDIP-seq.
I input my bam files and created a data.frame("dataframe") accordingly, example:
sample_name file_name group
A1 "A1.bam" A
B1 "B1.bam" B
A2 "A2.bam" A
When I try to create a qseaSet (>seaSet=createQseaSet(sampleTable=dataframe, BSgenome="BSgenome.Hsapiens.UCSC.hg38", chr.select=NULL, window_size=500)), the following error appears:
"Error in as.character.default(X[[i]], ...) : no method for coercing this S4 class to a vector”
Is there anyone acquainted with the "qsea" package that can help me with this?
Thank you,
Ricardo Ferreira (PhD student, ICBAS, University of Porto, Portugal)
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