Hi Members,
I'm stuck with N50 and L50.
Have paired end genome. E. coli isolates. Assembled with SPAdes, and quality using Quast.
My understanding is based on information spread across different resources, and blogs. For I'm using Quast, I read its manual.
Based on different sources, blogs, and posts of N50, and L50 I'm looking for a base line or a benchmark to assess genome quality.
My question:
If I'm to decide about quality of my genome based on L50 and N50, how would I be doing it?
1) Minimum L50, Or,
2) Maximum N50, Or,
3) Minimum N50, Or,
4) Maximum L50
And, most importantly: Why?
Based on reply by user: Jeremy Leipzig at
What he suggests I fail to understand.
If I were to say, then minimum number of Contigs, that is, minimum L50.
Or Maximum N50 (the length ).
Of course N50, and L50 cannot be considered as gold standard to decide of genome quality.
Any help would be greatly appreciated.
I'm stuck with N50 and L50.
Have paired end genome. E. coli isolates. Assembled with SPAdes, and quality using Quast.
My understanding is based on information spread across different resources, and blogs. For I'm using Quast, I read its manual.
Based on different sources, blogs, and posts of N50, and L50 I'm looking for a base line or a benchmark to assess genome quality.
My question:
If I'm to decide about quality of my genome based on L50 and N50, how would I be doing it?
1) Minimum L50, Or,
2) Maximum N50, Or,
3) Minimum N50, Or,
4) Maximum L50
And, most importantly: Why?
Based on reply by user: Jeremy Leipzig at
What he suggests I fail to understand.
If I were to say, then minimum number of Contigs, that is, minimum L50.
Or Maximum N50 (the length ).
Of course N50, and L50 cannot be considered as gold standard to decide of genome quality.
Any help would be greatly appreciated.
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