recipe deepdetails

Deep-learning-based DEconvolution of Tissue profiles with Accurate Interpretation of Locus-specific Signals (DeepDETAILS)

Homepage:

https://details.yulab.org

Developer docs:

https://github.com/liyao001/DeepDETAILS

License:

GPL-3.0

Recipe:

/deepdetails/meta.yaml

Links:

doi: 10.1101/2025.04.02.646189

package deepdetails

versions:

0.0.1rc2-0,  0.0.1rc1-0

depends bedtools:

depends biopython:

depends einops:

depends h5py:

depends matplotlib-base:

depends numpy:

depends pandas:

depends pybedtools:

depends pybigwig:

depends pyfaidx:

depends python:

>=3.8

depends pytorch:

depends pytorch-lightning:

depends scikit-learn:

depends scipy:

>=1.11.1

depends tensorboard:

depends torchmetrics:

depends tqdm:

depends ucsc-bedgraphtobigwig:

depends wandb:

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 deepdetails

and update with::

   mamba update deepdetails

To create a new environment, run:

mamba create --name myenvname deepdetails

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/deepdetails:<tag>

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

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