After running a new Ostrea lurida assembly yesterday (Olurida_v090), I evaluated Olurida_v090 using Quast to produce some stats. This was run on my local computer with the following command:

python \
/home/sam/programs/quast-5.0.2/quast.py \
--threads=20 \
--min-contig=100 \
--labels Olurida_v090 \
/home/sam/data/O_lurida/genomes/Olur_v090.SPolished.asm.wengan.fasta

---

RESULTS

Output folder:

• 20210521_olur_quast_Olur-v090-wengan/

• Quast Report (HTML; opens in browser; “interactive”)

• 20210521_olur_quast_Olur-v090-wengan/quast_results/results_2021_05_21_06_54_20/report.html

Report text:

All statistics are based on contigs of size >= 100 bp, unless otherwise noted (e.g., "# contigs (>= 0 bp)" and "Total length (>= 0 bp)" include all contigs).

Assembly                    Olurida_v090
# contigs (>= 0 bp)         19009       
# contigs (>= 1000 bp)      19009       
# contigs (>= 5000 bp)      17955       
# contigs (>= 10000 bp)     5653        
# contigs (>= 25000 bp)     343         
# contigs (>= 50000 bp)     4           
Total length (>= 0 bp)      177359031   
Total length (>= 1000 bp)   177359031   
Total length (>= 5000 bp)   172575953   
Total length (>= 10000 bp)  84976128    
Total length (>= 25000 bp)  10402122    
Total length (>= 50000 bp)  232116      
# contigs                   19009       
Largest contig              65918       
Total length                177359031   
GC (%)                      36.06       
N50                         9729        
N75                         7149        
L50                         6029        
L75                         11363       
# N's per 100 kbp           0.00  

Overall, looks pretty good. Will need to compare to existing assemblies for a better assessment.