Built-in modules of Eoulsan
Eoulsan contains several built-in modules to perform analysis. As Eoulsan can work in local and distributed modes, some modules are available for the two and some for only one. Note that local Hadoop cluster mode and AWS mode are both distributed modes.
| Phase/Module | Local Mode | Distributed mode | Comment |
|---|---|---|---|
| Create mapper index | Yes | Yes | This module is automatically called when need |
| Create STAR mapper index | Yes | Yes | |
| FastQC | Yes | Yes | |
| Filter reads | Yes | Yes | |
| Map reads | Yes | Yes | |
| Filter alignments | Yes | Yes | |
| Filter and map reads | No | Yes | |
| Sam2bam | Yes | Yes | |
| Bam2sam | Yes | Yes | |
| Sam2fastq | Yes | Yes | |
| Splice2bed | Yes | Yes | |
| Expression | Yes | Yes | |
| Expression annotation | Yes | Yes | |
| MultiQC | Yes | Yes | |
| Normalization | Yes | No | |
| Differential analysis | Yes | No | |
| Differential analysis with DESeq2 | Yes | No | |
| Differential analysis annotation | Yes | No | |
| R SingleCellExperiment creator | Yes | No | |
| Splitters and mergers | Yes | No | |
| Shell | Yes | No | |
| Import | Yes | No |