Package Recipe 'cutadapt' — Bioconda documentation (original) (raw)
recipe cutadapt
Trim adapters from high-throughput sequencing reads
Homepage:
https://cutadapt.readthedocs.io/
Developer docs:
https://github.com/marcelm/cutadapt
License:
MIT / MIT
Recipe:
Links:
biotools: cutadapt, doi: 10.14806/ej.17.1.200, usegalaxy-eu: cutadapt
package cutadapt¶
versions:
5.1-0
,5.0-0
,4.9-3
,4.9-2
,4.9-1
,4.9-0
,4.8-1
,4.8-0
,4.7-1
,
5.1-0
,5.0-0
,4.9-3
,4.9-2
,4.9-1
,4.9-0
,4.8-1
,4.8-0
,4.7-1
,4.7-0
,4.6-2
,4.6-1
,4.6-0
,4.5-0
,4.4-1
,4.4-0
,4.3-0
,4.2-0
,4.1-1
,4.1-0
,4.0-0
,3.7-1
,3.7-0
,3.6-0
,3.5-1
,3.5-0
,3.4-1
,3.4-0
,3.3-1
,3.3-0
,3.2-0
,3.1-0
,3.0-0
,2.10-1
,2.10-0
,2.9-0
,2.8-0
,2.7-0
,2.6-0
,2.5-0
,2.4-0
,2.3-0
,2.2-0
,2.1-0
,2.0-0
,1.18-1
,1.18-0
,1.17-0
,1.16-2
,1.16-1
,1.16-0
,1.15-0
,1.14-0
,1.13-0
,1.12-1
,1.12-0
,1.11-0
,1.10-0
,1.9.1-0
,1.8.3-0
,1.8.1-0
depends dnaio:
>=1.2.2
depends libgcc:
>=13
depends python:
>=3.10,<3.11.0a0
depends python_abi:
3.10.* *_cp310
depends xopen:
>=1.6.0
requirements:
additional platforms:
linux-aarch64
,osx-arm64
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 cutadapt
and update with::
mamba update cutadapt
To create a new environment, run:
mamba create --name myenvname cutadapt
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/cutadapt:
(see cutadapt/tags
_ for valid values for <tag>
)