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Type: cufflinks
| Parameter | Parameter in the GUI | Type |
|---|---|---|
| out-dir | Output directory | string |
| ref-annotation | Reference annotation | string |
| rabt-annotation | RABT annotation | string |
| library-type | Library type | numeric |
| mask-file | Mask file | string |
| multi-read-correct | Multi-read correct | boolean |
| min-isoform-fraction | Min isoform fraction | numeric |
| frag-bias-correct | Frag bias correct | string |
| pre-mrna-fraction | Pre-mRNA fraction | numeric |
| path | Cufflinks tool path | string |
| tmp-dir | Temporary directory | string |
Input/Output Ports
The element has 1 input port:
Name in GUI: Input reads
Name in Schema File: in-assembly
Slots:
| Slot In GUI | Slot in Schema File | Type |
|---|---|---|
| Assembly data | assembly | assembly |
| Source url | url | string |
And 1 output port:
Name in GUI: Output annotations
Name in Schema File: out-annotations
Slots:
| Slot In GUI | Slot in Schema File | Type |
|---|---|---|
| Isoform-level expression values | isolevel.slot | ann_table |