Table 1(continued)Tool
Description
Requirements
Type
Interface
Operatingsystem
Programinglanguages References
Differential expression detectionSCDE
Models gene-specific expression
as a two-component mixture:a Poisson componentdescribes zero and a negativebinomial describes non-zeromeasurements
Requires un-normalized gene
expression counts (performsinternal correction) andprovides gene-specificposterior probabilities ofdifferential expression(DE) between two biologicalconditions. Tests for DE areperformed on non-zeros
Package
Command
line
Unix/
Linux,Mac OS,Windows
R[
88
]
powsimR
Simulates and evaluates
differential expression frombulk and especially single-cellRNA-seq data making itsuitable for a priori andposterior power analyses.Powsim is a flexible tool thatcan not only estimate samplesizes necessary to achieve acertain power but also informsabout the power to detectdifferential expression (DE) ina data set at hand. It can allowthe researcher to distinguishbetween actual discrepanciesand incongruities due to lackof power
NA
Package/
module
Command
line
Unix/
Linux,Mac OS,Windows
R[
89
]
340 Yungang Xu and Xiaobo Zhou