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GSR: Simulator - powsimR
| Attribute | Value |
|---|---|
| Title | powsimR |
| Short Description | powsimR assess power and sample size requirements for differential expression (DE) analysis of single cell and bulk RNA-seq experiments. |
| Long Description | powsimR assess power and sample size requirements for differential expression (DE) analysis of single cell and bulk RNA-seq experiments. The number of replicates required to achieve the desired statistical power is determined by technical noise and biological variability. Both of these variables are considerably larger if the biological replicates are single cells. powsimR can not only estimate sample sizes necessary to achieve a certain power, but also informs about the power to detect DE in a data set at hand. |
| Version | 1.2.4 |
| Project Started | 2018 |
| Last Release | 4 years, 9 months ago |
| Homepage | https://github.com/bvieth/powsimR |
| Citations | Vieth B, Ziegenhain C, Parekh S, Enard W, Hellmann I, powsimR: power analysis for bulk and single cell RNA-seq experiments., Bioinformatics, Nov. 1, 2017 [ Abstract, cited in PMC ] |
| GSR Certification |  ✔ Accessibility |
| Last evaluated | June 23, 2022 (1155 days ago) |
| Author verification | The basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator. |
| Attribute Category | Attribute |
|---|---|
| Target | |
| Type of Simulated Data | |
| Variations | |
| Simulation Method | |
| Input | |
| Data Type | |
| File format | |
| Output | |
| Data Type | |
| Sequencing Reads | |
| File Format | |
| Sample Type | |
| Phenotype | |
| Trait Type | |
| Determinants | |
| Evolutionary Features | |
| Demographic | |
| Population Size Changes | |
| Gene Flow | |
| Spatiality | |
| Life Cycle | |
| Mating System | |
| Fecundity | |
| Natural Selection | |
| Determinant | |
| Models | |
| Recombination | |
| Mutation Models | |
| Events Allowed | |
| Other | |
| Interface | Command-line, |
| Development | |
| Tested Platforms | |
| Language | R, |
| License | Other, |
| GSR Certification | Accessibility, Documentation, Application, Support, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 2
The following 2 publications are selected examples of applications that used powsimR.
2023
Crowell HL, Morillo Leonardo SX, Soneson C, Robinson MD, The shaky foundations of simulating single-cell RNA sequencing data., Genome Biol, March 29, 2023 [Abstract]
1986
Heslop JP, Blakeley DM, Brown KD, Irvine RF, Berridge MJ, Effects of bombesin and insulin on inositol (1,4,5)trisphosphate and inositol (1,3,4)trisphosphate formation in Swiss 3T3 cells., Cell, Dec. 5, 1986 [Abstract]