Question: low BUSCO score
gravatar for mursyidahkhan
9 months ago by
mursyidahkhan0 wrote:

Hello everyone. Just a quick review on my work. I'm working on the transcriptome data of Rafflesia sp. (a parasitic plant). I have assembled the data and conduct Bowtie2 and CD-HIT-EST to check the quality of my assembly. My Bowtie2 showed 94.92% overall alignment rate and the cd-hit-est also gave in a good result.

My problem arises when i run BUSCO to check the completeness of the assembly. This is my result which i run against the embryophyta_odb10 lineage; A low percentage of completeness with higher duplicates. C:53.0%[S:13.7%,D:39.3%],F:3.1%,M:43.9%,n:1375

I also run the analysis against the eukaryota_odb9 lineage but now i get a high percentage with higher duplicates as well; C:95.4%[S:27.7%,D:67.7%],F:1.7%,M:2.9%,n:303

There's very least discussion on 'how to tabulate the busco reads'. I really hope anyone can help me with better solutions on this issue. Thank you so much for your concern.

rna-seq assembly • 326 views
ADD COMMENTlink modified 7 days ago by moharrek_fm660 • written 9 months ago by mursyidahkhan0

Hello, Sorry, did you get any solution on your issue?

ADD REPLYlink modified 7 days ago • written 7 days ago by moharrek_fm660
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1262 users visited in the last hour