ont-assembly-snake master @ f4d6add
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A Snakemake wrapper for easily creating de novo bacterial genome assemblies from Oxford Nanopore (ONT) sequencing data, and optionally Illumina data, using any combination of read filtering, assembly, long and short read polishing, and reference-based polishing.
Included programs
| read filtering | assembly | long read polishing | short read polishing | reference-based polishing |
|---|---|---|---|---|
| Filtlong Rasusa |
Flye raven miniasm Unicycler Canu |
racon medaka |
pilon Polypolish POLCA |
Homopolish proovframe |
Version History
master @ f4d6add (earliest) Created 6th Mar 2024 at 10:25 by Peter Menzel
run canu as shadow rule to reduce disk space usage
and add comment about Medaka's default model to README
Frozen
masterf4d6add
Creators and SubmitterViews: 991 Downloads: 320
Created: 6th Mar 2024 at 10:25
AttributionsNone
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