recipe seqverify

Seqverify analyzes whole genome sequencing data for gene-editing verification.

Homepage:

https://github.com/mpiersonsmela/SeqVerify

License:

GPL-3.0

Recipe:

/seqverify/meta.yaml

package seqverify

versions:

1.3.0-0,  1.2.1-0,  1.2.0-0,  1.1.0-0,  1.0.0-0,  0.1.0-0

depends bcftools:

depends blast:

depends bracken:

depends bwa:

depends cnvpytor:

depends htslib:

depends idna:

depends igv:

2.13.2.*

depends igv-reports:

depends kraken2:

depends matplotlib-base:

depends numpy:

depends openjdk:

11.*

depends pip:

depends python:

3.10.*

depends samtools:

depends scipy:

depends snpeff:

5.1.*

depends snpsift:

4.3.1t.*

requirements:

additional platforms:

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 seqverify

and update with::

   mamba update seqverify

To create a new environment, run:

mamba create --name myenvname seqverify

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/seqverify:<tag>

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

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