bio-workflows-genome-assembly-pipeline

Name: bio-workflows-genome-assembly-pipeline
Rating: 5 (1 reviews)
Author: bg-szy

Orchestrates an end-to-end de novo genome assembly project, routing each step to the right genome-assembly skill rather than restating it. Profiles the genome first (k-mer spectrum -> size, heterozygosity, ploidy), QCs reads, chooses an assembly path by data type (SPAdes for Illumina, Flye for noisy long reads, hifiasm for HiFi, metaFlye for communities), polishes only when needed, decontaminates,

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Atualizado há 15 dias

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Version Compatibility

Reference examples tested with: GenomeScope2 2.0+, meryl 1.4+, Merqury 1.3+, fastp 0.23+, SPAdes 4.0+, Flye 2.9+, hifiasm 0.25+, metaFlye 2.9+, Racon 1.5+, medaka 2.0+, minimap2 2.26+, FCS-GX 0.5+, CheckM2 1.0+, GUNC 1.0+, YaHS 1.2+, QUAST 5.2+, BUSCO 5.5+, samtools 1.19+. Each owning genome-assembly skill is the source of truth for its tool's pinned version.

Before using code patterns, verify installed versions match. If versions differ:

CLI: <tool> --version then

[Description truncada. Veja o README completo no GitHub.]

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