Fishpond: differential transcript and gene expression with inferential replicates


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Documentation for package ‘fishpond’ version 1.2.0

Help Pages

computeInfRV Compute inferential relative variance (InfRV)
deswish deswish: DESeq2-apeglm With Inferential Samples Helps
labelKeep Label rows to keep based on minimal count
makeSimSwishData Make simulated data for swish for examples/testing
plotInfReps Plot inferential replicates for a gene or transcript
plotMASwish MA plot
readEDS readEDS - a utility function for quickly reading in Alevin's EDS format
scaleInfReps Scale inferential replicate counts
swish swish: SAMseq With Inferential Samples Helps