recipe bioconductor-kissde

Retrieves Condition-Specific Variants in RNA-Seq Data



GPL (>= 2)



Retrieves condition-specific variants in RNA-seq data (SNVs, alternative-splicings, indels). It has been developed as a post-treatment of 'KisSplice' but can also be used with user's own data.

package bioconductor-kissde

(downloads) docker_bioconductor-kissde



depends bioconductor-biobase:


depends bioconductor-deseq2:


depends bioconductor-dss:


depends r-ade4:

depends r-aods3:

depends r-base:


depends r-doparallel:

depends r-dt:

depends r-factoextra:

depends r-foreach:

depends r-ggplot2:

depends r-gplots:

depends r-matrixstats:

depends r-shiny:

depends r-shinycssloaders:



You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-kissde

and update with::

   mamba update bioconductor-kissde

To create a new environment, run:

mamba create --name myenvname bioconductor-kissde

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `bioconductor-kissde/tags`_ for valid values for ``<tag>``)

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