This directory includes the workflow and files refer to homozygous species assemble. An analysis pipeline in contig_Snakefile to streamline the processing of assembly.
snakemake -s contig_Snakefile -j 64 --stats snakejob.stats >&2 2>>snakejob.logThe following software are applied:
Flye , Hicanu and Hifiasm are used to assemble primary genome.
GALA is used to fillter the potential miss-assembly regions
WGS is manual software intergrated in pipeline (https://github.com/YaoZhou89/WGSc)
Figure1. Pipeline of genome assembly.