Integrative analysis of gene expression (RNA-Seq data), and histone modification data for user-defined sets of histone marks (ChIP-Seq data) to discover consistent changes in genes between biological conditions. Additionally, Pareto optimization is used to prioritize genes based on the level of consistent changes in both RNA-Seq and ChIP-Seq data. Method is described in Cao, Y. et al. (2020) <doi:10.1186/s12864-020-07205-6>.
| Version: | 0.1.2 |
| Depends: | R (≥ 3.6.0) |
| Imports: | GenomicRanges, GenomeInfoDb, IRanges, GenomicAlignments, biomaRt, Rsamtools, rPref, DESeq2 |
| Suggests: | knitr, rmarkdown |
| Published: | 2021-06-18 |
| Author: | Yingying Cao [aut, cre] |
| Maintainer: | Yingying Cao <yingying.cao at uni-due.de> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| NeedsCompilation: | no |
| Materials: | README |
| CRAN checks: | intePareto results |
| Reference manual: | intePareto.pdf |
| Vignettes: |
intePareto |
| Package source: | intePareto_0.1.2.tar.gz |
| Windows binaries: | r-devel: intePareto_0.1.2.zip, r-release: intePareto_0.1.2.zip, r-oldrel: intePareto_0.1.2.zip |
| macOS binaries: | r-release (arm64): intePareto_0.1.2.tgz, r-oldrel (arm64): intePareto_0.1.2.tgz, r-release (x86_64): intePareto_0.1.2.tgz, r-oldrel (x86_64): intePareto_0.1.2.tgz |
| Old sources: | intePareto archive |
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