Table 1 Table of the times and the RAM memory peaks reached during the RNA-Seq analysis for the eight pipelines
From: ARPIR: automatic RNA-Seq pipelines with interactive report
| Â | Alignment | Quantification | DEA | Time (h) | RAM (Gb) |
|---|---|---|---|---|---|
1° pipeline | TopHat2 | Cufflinks | cummeRbund | 35 | 3.3 |
2° pipeline | Hisat2 | StringTie | Ballgown | 4 | 4.3 |
3° pipeline | Hisat2 | featureCounts | DESeq2 | 4 | 4.3 |
4° pipeline | Hisat2 | featureCounts | edgeR | 4 | 4.3 |
5° pipeline | STAR | Cufflinks | cummeRbund | 5 | 30 |
6° pipeline | STAR | featureCounts | DESeq2 | 4 | 30 |
7° pipeline | STAR | featureCounts | edgeR | 4 | 30 |
8° pipeline | Kallisto | Kallisto | Sleuth | 2 | 2.2 |