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 (2019) for details on the implemented methods.


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install.packages("seqgendiff")

1.1.1 by David Gerard, 7 days ago


https://github.com/dcgerard/seqgendiff


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