FracFixR: Compositional Statistical Framework for RNA Fractionation
Analysis
A compositional statistical framework for absolute proportion
estimation between fractions in RNA sequencing data. 'FracFixR' addresses
the fundamental challenge in fractionated RNA-seq experiments where library
preparation and sequencing depth obscure the original proportions of RNA
fractions. It reconstructs original fraction proportions using non-negative
linear regression, estimates the "lost" unrecoverable fraction, corrects
individual transcript frequencies, and performs differential proportion
testing between conditions. Supports any RNA fractionation protocol including
polysome profiling, sub-cellular localization, and RNA-protein complex isolation.
| Version: |
1.0.0 |
| Depends: |
R (≥ 4.0.0) |
| Imports: |
future.apply (≥ 1.8.1), nnls (≥ 1.4), ggplot2 (≥ 3.3.5), dplyr (≥ 1.0.7), RColorBrewer (≥ 1.1-2), tidyr (≥ 1.1.3), matrixStats (≥ 0.60.0), aod (≥ 1.3.1), stats, utils, future, grDevices |
| Suggests: |
testthat (≥ 3.0.0), knitr, rmarkdown |
| Published: |
2025-10-21 |
| DOI: |
10.32614/CRAN.package.FracFixR |
| Author: |
Alice Cleynen 
[aut, cre],
Agin Ravindran [aut],
Nikolay Shirokikh
[aut] |
| Maintainer: |
Alice Cleynen <alice.cleynen at cnrs.fr> |
| License: |
CC BY 4.0 |
| NeedsCompilation: |
no |
| Materials: |
NEWS |
| CRAN checks: |
FracFixR results |
Documentation:
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