Description

metagenomic binning with self-supervised learning

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

bam (file)

BAM/CRAM/SAM file

*.{bam,cram}

fasta (file)

Fasta file of the assembled contigs

*.{fa,fasta,fna,fa.gz,fasta.gz,fna.gz}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

versions (file)

File containing software versions

versions.yml

csv (file)

generated files

*.csv

h5 (file)

trained model

*.h5

output_prerecluster_bins (file)

output_prerecluster_bins

output_prerecluster_bins/*.fa

output_recluster_bins (file)

output_recluster_bins

output_recluster_bins/*.fa

tsv (file)

information of bins

*.tsv
author
Github user BigDataBiology
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Tools

semibin
MIT

Metagenomic binning with semi-supervised siamese neural network

github.com/BigDataBiology/SemiBin semibin.readthedocs.io/en/latest https://github.com/BigDataBiology/SemiBin 10.1038/s41467-022-29843-y