recipe bioconductor-lungcancerlines

Reads from Two Lung Cancer Cell Lines






Reads from an RNA-seq experiment between two lung cancer cell lines: H1993 (met) and H2073 (primary). The reads are stored as Fastq files and are meant for use with the TP53Genome object in the gmapR package.

package bioconductor-lungcancerlines

(downloads) docker_bioconductor-lungcancerlines



depends bioconductor-data-packages:


depends bioconductor-rsamtools:


depends curl:

depends r-base:




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-lungcancerlines

and update with::

   mamba update bioconductor-lungcancerlines

To create a new environment, run:

mamba create --name myenvname bioconductor-lungcancerlines

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-lungcancerlines/tags`_ for valid values for ``<tag>``)

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