recipe instanovo

De novo peptide sequencing with InstaNovo

Homepage:

https://github.com/instadeepai/instanovo

License:

Apache-2.0

Recipe:

/instanovo/meta.yaml

Links:

doi: 10.1101/2023.08.30.555055

package instanovo

versions:

1.0.0-0

depends click:

depends datasets:

depends hydra-core:

depends jaxtyping:

depends jiwer:

depends matchms:

depends neptune:

depends numpy:

depends omegaconf:

depends pandas:

depends polars:

depends pyopenms:

depends python:

depends python-dotenv:

depends pytorch:

depends pytorch-lightning:

depends s3fs:

depends scikit-learn:

depends spectrum_utils:

depends tensorboard:

depends tqdm:

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 instanovo

and update with::

   mamba update instanovo

To create a new environment, run:

mamba create --name myenvname instanovo

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/instanovo:<tag>

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

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