- recipe bioconductor-timirgen
Time sensitive microRNA-mRNA integration, analysis and network generation tool
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/TimiRGeN.html
- License
GPL-3
- Recipe
TimiRGeN (Time Incorporated miR-mRNA Generation of Networks) is a novel R package which functionally analyses and integrates time course miRNA-mRNA differential expression data. This tool can generate small networks within R or export results into cytoscape or pathvisio for more detailed network construction and hypothesis generation. This tool is created for researchers that wish to dive deep into time series multi-omic datasets. TimiRGeN goes further than many other tools in terms of data reduction. Here, potentially hundreds-of-thousands of potential miRNA-mRNA interactions can be whittled down into a handful of high confidence miRNA-mRNA interactions affecting a signalling pathway, across a time course.
- package bioconductor-timirgen¶
-
- Versions
1.4.0-0
,1.2.0-0
,1.0.3-0
,1.0.0-0
- Depends
bioconductor-biomart
>=2.50.0,<2.51.0
bioconductor-clusterprofiler
>=4.2.0,<4.3.0
bioconductor-mfuzz
>=2.54.0,<2.55.0
bioconductor-multiassayexperiment
>=1.20.0,<1.21.0
bioconductor-rcy3
>=2.14.0,<2.15.0
bioconductor-rwikipathways
>=1.14.0,<1.15.0
r-base
>=4.1,<4.2.0a0
r-dplyr
>=0.8.4
r-gtools
>=3.8.1
r-igraph
>=1.2.4.2
r-stringr
>=1.4.0
r-tidyr
>=1.0.2
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-timirgen
and update with:
conda update bioconductor-timirgen
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-timirgen:<tag>
(see bioconductor-timirgen/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-timirgen/README.html)