Nicolas Dierckxsens

Sorry, wanted to know how you extracted your mitochondrial DNA. I need to know if the complete mitochondrial genome is covered or if there are gaps in the genome (which...

Reducing the read length in the config file to 250 is not solving the low quality problem of course. Maybe it is best to trim the reads to 200 bp?...

If you have an assembly that you know is correct, you can use that as seed, but then you need to put the option "extend seed directly" to yes. It...

Yes you could do that and don't forget to add the fasta file of the chloroplast sequence in the config file

You can send the log file, I can check the parameters. But plant mitochondrial genomes are very hard to assemble, even with long reads it mostly fails

You do get quite large contigs, it is better than most cases I saw. You can try different assemblers but I don't think you will succeed for a circular genome..

Hi, No idea, never heard of it. If you give some more information I could see if possible Are they short reads, and all the exact same length? What is...

yeah it should work fine then, just use illumina as setting... If there is a problem, you can contact me

Hi, Which version did you use? Because I changed quite a bit in the latest versions.

Would it be possible to share your output files? You can mail them to me, my email is on github. And the assembled mitogenome was from the same dataset?