bio-genome-assembly-long-read-assembly

Name: bio-genome-assembly-long-read-assembly
Rating: 5 (1 reviews)
Author: bg-szy

Assembles genomes de novo from noisy long reads (Oxford Nanopore R9/R10/Dorado, PacBio CLR) with Flye (repeat graph), Canu (correct-trim-assemble OLC), NextDenovo, Shasta, Raven, wtdbg2, or miniasm, and reconciles bacterial assemblies into a consensus with Trycycler/Autocycler. Covers matching the input flag to the basecaller era (--nano-hq vs --nano-raw), why a raw long-read assembly is contiguou

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Updated 13 days ago

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Version Compatibility

Reference examples tested with: Flye 2.9+, Canu 2.2+, NextDenovo 2.5+, Shasta 0.11+, Raven 1.8+, wtdbg2 2.5+, miniasm 0.3+, minimap2 2.26+, purge_dups 1.2+, Porechop_ABI 0.5+, Trycycler 0.5+.

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

CLI: <tool> --version then <tool> --help to confirm flags

Two behaviors are version-dependent and load-bearing: Flye --genome-size became optional (auto-estimated) and --scaffold flipped OF

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

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