search

voutcn / megahit

Ultra-fast and memory-efficient (meta-)genome assembler
http://www.ncbi.nlm.nih.gov/pubmed/25609793
GNU General Public License v3.0
585 stars 134 forks source link

MEGAHIT output: scaffolds #359

Open tvtv195 opened 1 year ago

tvtv195 commented 1 year ago

It seems that MEGAHIT uses paired-end information to build contigs, but it does not output scaffold in the standard workflow. Is there a flag/ function to get MEGAHIT to produce scaffolds?

cnxiaobo94 commented 1 year ago

the same needs for me! I obtained a contigs file with Megahit, but I want scaffolds. someone can help with this?

cnxiaobo94 commented 1 year ago

It seems that MEGAHIT uses paired-end information to build contigs, but it does not output scaffold in the standard workflow. Is there a flag/ function to get MEGAHIT to produce scaffolds?

Hi, have you found a solution? I tried SOAPdenovo, but it requests too many memories out of my computer.

EorgeKit commented 10 months ago

You can use soap-denovo-infusion to make scaffolds from megahit contigs