Question: Is it true that N50 is not an important parameter for quality in Transcriptome Assembly?
0
gravatar for Amk
4.6 years ago by
Amk120
Amk120 wrote:

Dear All,

I came to know that N50 value is not an important parameter to determine the Assembly quality in Transcriptome assembly rather it can be applicable in Genome assembly. Is it true?, although we know N50 value is also changeable with more mismatches so can't rely on that fully. Can any one comment on this??

Thank you.
Amk

transcriptome n50 assembly • 1.9k views
ADD COMMENTlink modified 4.6 years ago by Brian Bushnell17k • written 4.6 years ago by Amk120
3
gravatar for Brian Bushnell
4.6 years ago by
Walnut Creek, USA
Brian Bushnell17k wrote:

N50 is not as useful in a transcriptome assembly as genome. In a genome, a low N50 (few contigs) and high L50 (long contigs) are good. But in a transcriptome, it really depends on the organism - you want the contigs to reflect the organism's genes and isoforms, rather than just being as long as possible.

ADD COMMENTlink modified 6 months ago by RamRS27k • written 4.6 years ago by Brian Bushnell17k
0
gravatar for kanika.151
4.6 years ago by
kanika.15180
Italy
kanika.15180 wrote:

N50 is needed. It is an important parameter only then one can go ahead with the Assembly or else there is no point.

ADD COMMENTlink written 4.6 years ago by kanika.15180
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1341 users visited in the last hour