recipe fastq-fix-i5

Rewrite FASTQ headers by reverse-complementing the i5 (Index2/P5) barcode in :i7+i5

Homepage:

https://github.com/ssciwr/fastq-fix-i5

License:

MIT

Recipe:

/fastq-fix-i5/meta.yaml

A fast, streaming tool to rewrite FASTQ headers by reverse-complementing the i5 (Index2 / P5) barcode, without modifying read sequences or quality scores. Headers are expected to end with the standard Illumina `:<i7>+<i5>` format.

package fastq-fix-i5

(downloads) docker_fastq-fix-i5

versions:

1.0.0-0

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 fastq-fix-i5

and update with::

   mamba update fastq-fix-i5

To create a new environment, run:

mamba create --name myenvname fastq-fix-i5

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/fastq-fix-i5:<tag>

(see `fastq-fix-i5/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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