recipe seqforge

SeqForge: A genomics toolkit for FASTA processing, BLAST orchestration, and motif mining.

Homepage:

https://github.com/ERBringHorvath/SeqForge

License:

MIT / MIT

Recipe:

/seqforge/meta.yaml

SeqForge provides utilities to sanitize, split, annotate, and analyze FASTA files; run BLAST+ queries in parallel; and perform motif mining with export options. Progress reporting is handled by an in-house progress bar (no tqdm dependency).

package seqforge

(downloads) docker_seqforge

versions:

1.0.4-0,  1.0.1-0,  1.0.0-0

depends biopython:

depends blast:

depends logomaker:

depends matplotlib-base:

depends pandas:

depends python:

>=3.10

depends seaborn:

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 seqforge

and update with::

   mamba update seqforge

To create a new environment, run:

mamba create --name myenvname seqforge

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/seqforge:<tag>

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

Download stats

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/seqforge/README.html)