RNA-Seq Generation/Modification for Simulation

Generates/modifies RNA-seq data for use in simulations. We provide a suite of functions that will add a known amount of signal to a real RNA-seq dataset. The advantage of using this approach over simulating under a theoretical distribution is that common/annoying aspects of the data are more preserved, giving a more realistic evaluation of your method. The main functions are select_counts(), thin_diff(), thin_lib(), thin_gene(), thin_2group(), thin_all(), and effective_cor(). See Gerard (2020) for details on the implemented methods.


Reference manual

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1.2.2 by David Gerard, a year ago


Report a bug at http://github.com/dcgerard/seqgendiff/issues

Browse source code at https://github.com/cran/seqgendiff

Authors: David Gerard [aut, cre]

Documentation:   PDF Manual  

GPL-3 license

Imports assertthat, irlba, sva, pdist, matchingR, clue, cate

Suggests covr, testthat, SummarizedExperiment, DESeq2, knitr, rmarkdown, airway, limma, qvalue, edgeR, optmatch

See at CRAN