recipe crisprlungo

A software pipeline for analyzing single-anchor amplicon sequencing and quantifying complex genome editing outcomes

Homepage:

https://github.com/pinellolab/CRISPRlungo

License:

Partners

Recipe:

/crisprlungo/meta.yaml

package crisprlungo

versions:

0.1.14-0

depends biopython:

depends bowtie2:

depends cas-offinder:

depends crispresso2:

depends cutadapt:

depends numpy:

>=1.21.6,<2.0a0

depends pandas:

depends plotly:

depends python:

>3

depends samtools:

>=1.17

depends scipy:

requirements:

Installation

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 crisprlungo

and update with::

   mamba update crisprlungo

To create a new environment, run:

mamba create --name myenvname crisprlungo

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 quay.io/biocontainers/crisprlungo:<tag>

(see `crisprlungo/tags`_ for valid values for ``<tag>``)

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