Get multiple graphs (GFA files) with different lengths due to similar depth between mitogenome and plastome

[nigisensei]

Dear @Kinggerm I use GetOrganelle to assemble the chloroplast of a species and I got 8 fasta files with different length. The fasta and gfa files is below. I hope you can give me some suggestions to solve this problem. fasta file and gfa file.zip Thank you for the help!

[Kinggerm]

https://github.com/Kinggerm/GetOrganelle/wiki/FAQ#why-are-there-so-many-path_sequencefasta-files

[nigisensei]

Dear @Kinggerm Thank you for your reply! The structure of the GFA files I got is almost the same. Only the total length of the assembled FASTA files is different. The picture is as follows. How can I choose the most appropriate assembled file？

[Kinggerm]

Please visualize the *.fastg file, not the *.gfa file

[nigisensei]

Thank you for your guidance, this is the fastag file after visualization.

[Kinggerm]

Please keep the upper-left component and manually remove all other components, then re-visualized the modified graph with name, depth, length, and label from *.csv marked