recipe frogs

FROGS is a workflow designed to produce an OTUs count matrix from high depth sequencing amplicon data. This is the official release 3.1.0 of FROGS.

Homepage

https://github.com/geraldinepascal/FROGS

License

GNU GPL v3

Recipe

/frogs/meta.yaml

package frogs

(downloads) docker_frogs

Versions

3.1.0-0, 2.0.1-1, 2.0.1-0

Depends bioconductor-phyloseq

>=1.24.2

Depends blast

>=2.7.1

Depends cutadapt

>=1.18

Depends emboss

>=6.6.0

Depends fasttree

>=2.1.10

Depends flash

>=1.2.11

Depends itsx

>=1.1b

Depends mafft

>=7.407

Depends pandoc

<2.0

Depends perl

Depends perl-io-gzip

>=0.20

Depends perl-io-zlib

Depends python

>=2.7,<2.8.0a0

Depends r-base

>=3.5.1

Depends r-gridextra

>=2.3

Depends r-phangorn

>=2.4.0

Depends r-plotly

>=4.8.0

Depends r-rmarkdown

>=1.10

Depends rdptools

>=2.0.2

Depends scipy

>=1.1.0

Depends swarm

>=2.2.2

Depends util-linux

Depends vsearch

>=2.9.1

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install frogs

and update with:

conda update frogs

or use the docker container:

docker pull quay.io/biocontainers/frogs:<tag>

(see frogs/tags for valid values for <tag>)