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.