MEGAHIT_TOOLKIT

NAME

megahit_toolkit - ultra-fast and memory-efficient meta-genome assembler

SYNOPSIS

megahit_toolkit <sub_program> [sub options]

DESCRIPTION

sub-programs:

assemble

assemble from SdBG

local

local asssembly

iterate

extract iterative edges

buildlib

build read library

count

kmer counting

read2sdbg

build sdbg from reads

seq2sdbg

build sdbg from megahit contigs + edges

contig2fastg

convert MEGAHIT’s k*.contigs.fa to fastg format

readstat

calculate read stats (# of reads, bases, longest, shortest, average)

filterbylen

filter contigs by length

checkcpu

check whether the run-time CPU supports POPCNT and BMI2

checkpopcnt

check whether the run-time CPU supports POPCNT

checkbmi2

check whether the run-time CPU supports BMI2

dumpversion

dump version

kmax

the largest k value supported

AUTHOR

This manpage was written by Shayan Doust for the Debian distribution and can be used for any other usage of the program.