recipe start-asap

Prepare project directory and project sheet for ASA3P







biotools: start-asap

Prepare the input directory for 'ASA3P', creating automatically a _config.xls_ file from the reads provided. Requires one or more reference files (.gbk recommended) and a directory with FASTQ files (.fq or .fastq, gzipped). Metadata can be supplied via command line or with a JSON file.

package start-asap

(downloads) docker_start-asap



depends perl:

depends perl-getopt-long:

depends perl-json-pp:

depends perl-pod-usage:

depends perl-spreadsheet-writeexcel:



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 start-asap

and update with::

   mamba update start-asap

To create a new environment, run:

mamba create --name myenvname start-asap

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 `start-asap/tags`_ for valid values for ``<tag>``)

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