The bioinformatic evaluation of gene co-expression often begins with
correlation-based analyses. However, correlation lacks validity when
applied to relative data, including count data generated by next-generation
sequencing. This package implements several metrics for proportionality, including
phi [Lovell et al (2015) <doi:10.1371/journal.pcbi.1004075>] and
rho [Erb and Notredame (2016) <doi:10.1007/s12064-015-0220-8>]. This package also
implements several metrics for differential proportionality. Unlike correlation,
these measures give the same result for both relative and absolute data.
| Version: |
4.2.6 |
| Depends: |
methods, R (≥ 3.2.2) |
| Imports: |
fastcluster, ggplot2, grDevices, igraph, Rcpp, stats, utils |
| LinkingTo: |
Rcpp |
| Suggests: |
ALDEx2, Biobase, cccrm, compositions, data.table, datasets, grid, ggdendro, knitr, limma, parallel, plotly, reshape2, rgl, rmarkdown, SDMTools, testthat, vegan |
| Published: |
2019-12-16 |
| Author: |
Thomas Quinn [aut, cre],
David Lovell [aut],
Ionas Erb [aut],
Anders Bilgrau [ctb],
Greg Gloor [ctb],
Ryan Moore [ctb] |
| Maintainer: |
Thomas Quinn <contacttomquinn at gmail.com> |
| BugReports: |
http://github.com/tpq/propr/issues |
| License: |
GPL-2 |
| URL: |
http://github.com/tpq/propr |
| NeedsCompilation: |
yes |
| Citation: |
propr citation info |
| Materials: |
README NEWS |
| CRAN checks: |
propr results |