mahulchak
commented
3 years ago Could you please share your command?
On Wed, Jun 23, 2021, 04:47 Mondlii @.***> wrote:
Hi, I was using quickmerge on assemblies from Flye and Shasta. The run finished without any problems and I have an issue with the output files I received. The run gave me two fasta files, "merged_out.fasta" and "merged_prefix.fasta." This was the same for the anchor summary text files as well. I ran quast and busco on both the fasta outputs and it turns out the "merged_prefix.fasta" has a busco completion of 0% and an N50 of 180kb (which is lower than the one I had before merging) and on the other hand, the "merged_out.fasta" output has a completion score of 93% and an N50 of 500kb. The issue with the anchor files is that the one titled anchor_summary_prefix.txt is empty and only has headers, where as the "anchor_summary_out.txt" has a lot of information. Please advise on why this is and which files do you think I should keep moving forward or do I need a rerun? Thank you.
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Mondlii
Hi, I was using quickmerge on assemblies from Flye and Shasta. The run finished without any problems and I have an issue with the output files I received. The run gave me two fasta files, "merged_out.fasta" and "merged_prefix.fasta." This was the same for the anchor summary text files as well. I ran quast and busco on both the fasta outputs and it turns out the "merged_prefix.fasta" has a busco completion of 0% and an N50 of 180kb (which is lower than the one I had before merging) and on the other hand, the "merged_out.fasta" output has a completion score of 93% and an N50 of 500kb. The issue with the anchor files is that the one titled anchor_summary_prefix.txt is empty and only has headers, where as the "anchor_summary_out.txt" has a lot of information. Please advise on why this is and which files do you think I should keep moving forward or do I need a rerun? Thank you.