recipe talon

TALON is a Python package for identifying and quantifying known and novel genes/isoforms in long-read transcriptome data sets. TALON is technology-agnostic in that it works from mapped SAM files, allowing data from different sequencing platforms (i.e. PacBio and Oxford Nanopore) to be analyzed side by side.

Homepage:

https://github.com/mortazavilab/TALON

License:

MIT / MIT

Recipe:

/talon/meta.yaml

package talon

(downloads) docker_talon

versions:

6.0.1-0,  6.0-0,  5.0-0,  v5.0-1,  v5.0-0

depends bamread:

>=0.0.11

depends pandas:

depends pybedtools:

depends pyfaidx:

depends pyranges:

depends pysam:

>=0.15.4

depends python:

>=3.6,<3.8

depends scanpy:

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 talon

and update with::

   mamba update talon

To create a new environment, run:

mamba create --name myenvname talon

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/talon:<tag>

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

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