NextDenovo

[General]
job_type = sge
job_prefix = nextDenovo
task = all # 'all', 'correct', 'assemble'
rewrite = yes # yes/no
deltmp = yes
rerun = 10
parallel_jobs = 80
input_type = raw
read_type = clr
input_fofn = input.fofn
workdir = 30x
submit = qsub -pe make 1 -l vf=20G  -q  medium.q    -S /bin/sh -w n -o {out} -e {err} {script}

[correct_option]
read_cutoff = 1k
genome_size = 700m
seed_depth = 30
pa_correction = 80
sort_options = -m 1g -t 8
minimap2_options_raw =  -t 8
correction_options = -p 15

[assemble_option]
minimap2_options_cns =  -t 24
nextgraph_options = -a 1

https://nextdenovo.readthedocs.io/en/latest/

https://github.com/Nextomics/NextDenovo