BinQuasi | Analyzing Replicated ChIP Sequencing Data Using... |
BQ | Call peaks in replicated ChIP-seq data using BinQuasi |
call.peaks | Call peaks from a list of window-level p-values |
coef.glm | Extract model coefficients |
count.table | Create a matrix of ChIP-seq count data |
duplicated.matrix | Determine duplicate elements |
NBDev | Fit a negative binomial GLM for a given design matrix |
PoisDev | Compute Poisson deviances for a given design matrix |
QL.fit | Fit quasi-likelihood models to replicated ChIP-seq data... |
QL.results | Obtain p- and q-values using results from 'QL.fit' |
unique.matrix | Remove duplicate elements |
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