recipe mimick

Simulate linked-read data.

Homepage:

https://github.com/pdimens/mimick

Documentation:

https://pdimens.github.io/mimick

License:

GPL3 / GPL-3.0-or-later

Recipe:

/mimick/meta.yaml

Mimick, formerly known as XENIA from the VISOR project, is a simple but effective way of simulating linked-read FASTQ data (10x, haplotagging, stlfr, tellseq). Mimick allows you to simulate an arbitrary number of haplotypes, set overall coverage, molecule coverage, and mix-match barcodes with linked-read chemistries.

package mimick

versions:

1.1.0-1,  1.1.0-0,  1.0.2-0,  1.0.1-1,  1.0.1-0,  1.0-0

depends click:

>=8

depends htslib:

>=1.21

depends numpy:

>=1.15.3

depends pyfaidx:

>=0.8

depends pysam:

>=0.22.0

depends python:

>=3.10

depends pywgsim:

>=0.3.3

depends rich-click:

>=1.8

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 mimick

and update with::

   mamba update mimick

To create a new environment, run:

mamba create --name myenvname mimick

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/mimick:<tag>

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

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