Table 2 Summarizing features of the 3 splicing analyses tools
rMATS | MISO | SUPPA2 | |
|---|---|---|---|
Version | 4.0.2 | 0.5.4 | 2.3 |
Release Date | May 2018 | July 2017 | February 2018 |
Other required tools | None | Samtools | Kalisto/Salmon |
Reference | GTF | GFF3 | GTF |
Input file | FASTQ/BAM | BAM | TPM |
Supported experiments | Two groups, paired | 1 versus 1 comparison | Two groups, paired |
Job time | ++ | – – | + |
RAM | + + | – – | + + |
CPU | + + | – – | + + |
Ease of use | + + | – – | – |
FPGS 8PR detection | +/− | + | +/− |