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Information
| Unique identifier | OMICS_13846 |
|---|---|
| Name | variancePartition |
| Software type | Package/Module |
| Interface | Command line interface |
| Restrictions to use | None |
| Operating system | Unix/Linux, Mac OS, Windows |
| Programming languages | R |
| License | GNU General Public License version 2.0 |
| Computer skills | Advanced |
| Version | 1.10.0 |
| Stability | Stable |
| Requirements |
limma, methods, stats, gplots, graphics, Biobase, splines, utils, BiocStyle, grDevices, edgeR, ggplot2, DESeq2, rmarkdown, knitr, MASS, reshape2, foreach, tximport, tximportData, readr, doParallel, iterators, ballgown, dendextend, pbkrtest(>=0.4-4), colorRamps, lme4(>=1.1-10)
|
| Maintained | Yes |
Subtool
- dream
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Maintainer
- person_outline Gabriel Hoffman
Publications for variancePartition
VariancePartition: interpreting drivers of variation in complex gene expression studies.
variancePartition citations
(3)Neighbourhood interactions drive overyielding in mixed species tree communities
[…] wed us to quantify the importance of neighbourhood interactions in driving BPRs in young tree communities.All analyses were conducted in R (version 3.3.1) using the packages lme4, lmerTest, MuMIn and variancePartition. […]
Integrative transcriptomic analysis reveals key drivers of acute peanut allergic reactions
[…] for each gene. Multidimensional scaling analysis was used to identify outlier RNA-seq samples, resulting in removal of one sample (Supplementary Fig. ) from the discovery cohort. In addition, we used variancePartition, to assess the contribution of technical and biological factors to variation in gene expression across the samples. This revealed minimal influence of age and gender (Supplementary F […]
Gene Network Dysregulation in Dorsolateral Prefrontal Cortex Neurons of Humans with Cocaine Use Disorder
[…] is analysis revealed that RIN and PMI had strong widespread effects on gene expression (p < 0.01) (Supplementary Figure ). Since the effects of one covariate could mask the effects of others, we used VariancePartition to decompose gene expression variation into the variance attributable to each covariate. We calculated the variance explained by each covariate for each gene, which confirmed the wid […]
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