Table 3 Benchmark of two datasets (refer to Table 1) using 1 node and 48 threads per resource on the HPC cluster Galileo100
From: HPC-T-Assembly: a pipeline for de novo transcriptome assembly of large multi-specie datasets
Organism | Sample | Fastp (time) | Assembly RNA-spades (time) | Assembly trinity (time) | Clustering CD-HIT-EST (time) | Clustering corset (time) |
|---|---|---|---|---|---|---|
Ankistrodesmus sp | SRR21282135 | 0m49.618s | 80m48.9s | 833m44.1s | 1m4.2s | 0m16.6s + 0m10.2s |
SRR21282136 | 0m43.176s | |||||
SRR21282137 | 0m53.720s | |||||
Tetraedron minutum | SRR1174749 | 0m29.739s | 256m26.8s | 1041m22.4s | 4m17.5s | 0m13.2s + 0m9.5s |
SRR3478626 | 0m32.581s | |||||
SRR3478627 | 0m24.551s |