recipe sctagger

Fast and accurate matching of cellular barcodes across short- and long-reads of single-cell RNA-seq experiments






package sctagger

(downloads) docker_sctagger



depends matplotlib-base:

depends numpy:


depends pandas:

depends pyahocorasick:

depends pysam:


depends python:


depends python-edlib:

depends tqdm:



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 sctagger

and update with::

   mamba update sctagger

To create a new environment, run:

mamba create --name myenvname sctagger

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<tag>

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

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