Cogito
Compare genomic intervals tool - Automated, complete, reproducible and clear report about genomic and epigenomic data sets
Bioconductor version: 3.23 · Package version: 1.18.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Biological studies often consist of multiple conditions which are examined with different laboratory set ups like RNA-sequencing or ChIP-sequencing. To get an overview about the whole resulting data set, Cogito provides an automated, complete, reproducible and clear report about all samples and basic comparisons between all different samples. This report can be used as documentation about the data set or as starting point for further custom analysis.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Cogito")Details
| Maintainer | Annika Bürger <a.buerger@uni-muenster.de> |
| Author | Annika Bürger [cre, aut] |
| License | LGPL-3 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | FunctionalGenomics, GeneRegulation, Sequencing, Software |
| Package Short Url | https://bioconductor.org/packages/Cogito/ |
Citation
From within R, enter citation("Cogito"):
Annika Bürger. Cogito: Compare genomic intervals tool - Automated, complete, reproducible and clear report about genomic and epigenomic data sets. doi:10.18129/B9.bioc.Cogito, R package version 1.18.0, https://bioconductor.org/packages/Cogito.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | Cogito_1.18.0.tar.gz |
| macOS binary (arm64) | Cogito_1.18.0.tgz |
| macOS binary (x86_64) | Cogito_1.18.0.tgz |
Dependencies
Depends: R (>= 4.1), GenomicRanges, jsonlite, GenomicFeatures, entropy
Imports: BiocManager, rmarkdown, Seqinfo, S4Vectors, AnnotationDbi, graphics, stats, utils, methods, magrittr, ggplot2, TxDb.Mmusculus.UCSC.mm9.knownGene
Suggests: BiocStyle, knitr, markdown, testthat (>= 3.0.0)