recipe smeg

Strain-level MEtagenomic Growth estimation (SMEG) measures growth rates of microbial strains from complex metagenomic dataset

Homepage

https://github.com/ohlab/SMEG

License

MIT

Recipe

/smeg/meta.yaml

package smeg

(downloads) docker_smeg

Versions

1.1.4-0, 1.1.3-0, 1.1.2-0, 1.1.1-0, 1.1-1, 1.1-0, 1.0.1-2, 1.0.1-1, 1.0.1-0

Depends bamtools

Depends bedtools

Depends blast

Depends bowtie2

Depends libgenome

1.3.1 h470a237_0

Depends mauve

Depends openssl

1.0.*

Depends parallel

Depends prokka

Depends r-ape

Depends r-data.table

Depends r-dplyr

Depends r-dynamictreecut

Depends r-getopt

Depends r-ggplot2

Depends r-gplots

Depends r-gsubfn

Depends r-seqinr

Depends readline

>=6.2

Depends roary

Depends samtools

1.8.*

Requirements

Installation

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

conda install smeg

and update with:

conda update smeg

or use the docker container:

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

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