recipe cleaverna

Computational tool for scoring candidate cleavage sites of DNAzyme

Homepage:

https://github.com/reyhaneh-tavakoli/CleaveRNA

Documentation:

https://github.com/reyhaneh-tavakoli/CleaveRNA/blob/main/README.md

License:

MIT / MIT

Recipe:

/cleaverna/meta.yaml

CleaveRNA is Advanced machine learning-based computational tool for scoring candidate DNAzyme cleavage sites in substrate RNA sequences using structural and thermodynamic features. The tool supports multiple analysis modes including training and prediction. Key features: - Machine learning-based cleavage site prediction - Multiple prediction modes for different use cases - Feature extraction and model training capabilities - Cross-validation and performance metrics - Single command-line interface for all workflows

package cleaverna

(downloads) docker_cleaverna

versions:

1.0.0-0

depends intarna:

>=3.0

depends matplotlib-base:

>=3.3.0

depends numpy:

>=1.20.0

depends pandas:

>=1.3.0

depends python:

>=3.7

depends scikit-learn:

>=1.0.0

depends tqdm:

>=4.60.0

depends viennarna:

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 cleaverna

and update with::

   mamba update cleaverna

To create a new environment, run:

mamba create --name myenvname cleaverna

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/cleaverna:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/cleaverna/README.html)