recipe medaka

Neural network sequence error correction.

Homepage

https://github.com/nanoporetech/medaka

Documentation

https://nanoporetech.github.io/medaka/index.html

License

OTHER / Mozilla Public License 2.0

Recipe

/medaka/meta.yaml

package medaka

(downloads) docker_medaka

Versions

0.7.1-1, 0.7.0-1, 0.7.0-0, 0.6.5-0, 0.6.4-0, 0.6.2-0, 0.6.0-0, 0.5.2-0

Depends bcftools

1.9

Depends biopython

Depends bzip2

>=1.0.6,<2.0a0

Depends cffi

Depends h5py

2.7.1

Depends htslib

>=1.9,<1.10.0a0

Depends intervaltree

>=3.0.0

Depends keras

2.2.4

Depends libdeflate

>=1.0,<1.1.0a0

Depends libgcc-ng

>=7.3.0

Depends minimap2

2.11

Depends numpy

1.16.1

Depends pysam

Depends python

>=3.6,<3.7.0a0

Depends pyyaml

5.1

Depends samtools

1.9

Depends tensorflow

>=1.12.2

Depends whatshap

0.18

Depends xz

>=5.2.4,<5.3.0a0

Depends zlib

>=1.2.11,<1.3.0a0

Requirements

Installation

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

conda install medaka

and update with:

conda update medaka

or use the docker container:

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

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