Testing the differential expression by counts difference
Using NB distribution to calculate p-value for each gene as well as adjust p-value
callDEs(object, adjmethod = "BH")
the method for adjusting p-value, default is 'BH'. For details, see
This function firstly calls p-value used
pnbinom to call pvalue based on sum of counts difference between two
groups, then adjusts the pvalues via
p.adjust method. In addition, it also shrink the log2 fold-change towards a common dispersion
after pvalue calling.
ABSDataSet object with additional elements: shrinked log2 fold-change, pvalue and adjusted p-value,
denoted by foldChange pvalue and adj-pvalue, respectively. Use the
results method to get access it.
this function should run after
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