recipe bioconductor-rnasense

Analysis of Time-Resolved RNA-Seq Data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/RNAsense.html

License

GPL-3

Recipe

/bioconductor-rnasense/meta.yaml

RNA-sense tool compares RNA-seq time curves in two experimental conditions, i.e. wild-type and mutant, and works in three steps. At Step 1, it builds expression profile for each transcript in one condition (i.e. wild-type) and tests if the transcript abundance grows or decays significantly. Dynamic transcripts are then sorted to non-overlapping groups (time profiles) by the time point of switch up or down. At Step 2, RNA-sense outputs the groups of differentially expressed transcripts, which are up- or downregulated in the mutant compared to the wild-type at each time point. At Step 3, Correlations (Fisher's exact test) between the outputs of Step 1 (switch up- and switch down- time profile groups) and the outputs of Step2 (differentially expressed transcript groups) are calculated. The results of the correlation analysis are printed as two-dimensional color plot, with time profiles and differential expression groups at y- and x-axis, respectively, and facilitates the biological interpretation of the data.

package bioconductor-rnasense

(downloads) docker_bioconductor-rnasense

Versions

1.2.0-01.0.0-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-rnasense

and update with:

conda update bioconductor-rnasense

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-rnasense:<tag>

(see bioconductor-rnasense/tags for valid values for <tag>)