recipe htsinfer

HTSinfer infers metadata from Illumina high throughput sequencing (HTS) data

Homepage:

https://github.com/zavolanlab/htsinfer

License:

APACHE / Apache-2.0

Recipe:

/htsinfer/meta.yaml

package htsinfer

versions:

0.11.0-1,  0.11.0-0,  0.10.0-0,  0.9.0-0

depends biopython:

>=1.78

depends cutadapt:

>=3.5,<=4.2

depends kallisto:

>=0.46.1,<=0.48.0

depends numpy:

>=1.22,<1.25

depends pandas:

>=1.3.5,<1.4.0

depends pyahocorasick:

>=1.4.0

depends pydantic:

>=2,<3

depends pysam:

>=0.16.0

depends python:

>=3.8,<=3.10

depends star:

>=2.7.6

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 htsinfer

and update with::

   mamba update htsinfer

To create a new environment, run:

mamba create --name myenvname htsinfer

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/htsinfer:<tag>

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

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