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Type: seff
Parameter | Parameter in the GUI | Type |
---|---|---|
out-mode | Output directory | booleanstring |
inp-format | Input format | booleanstring |
out-format | Output format | booleanstring |
genome | Genome | numericstring |
updown-length | Upstream/downstream length | numeric |
canon | Cannonical transcripts | boolean |
hgvs | HGVS nomenclature | stringboolean |
lof | Annotate loss of function | stringboolean |
motif | Annotate TFBSs motifs | numeric |
const QString SnpEffWorker::BASE_SNPEFF_SUBDIR = "snpeff";
const QString SnpEffWorker::INPUT_PORT = "in-file";
const QString SnpEffWorker::OUTPUT_PORT = "out-file";
const QString SnpEffWorker::OUT_MODE_ID = "out-mode";
const QString SnpEffWorker::CUSTOM_DIR_ID = "custom-dir";
const QString SnpEffWorker::INPUT_FORMAT = "";
const QString SnpEffWorker::OUTPUT_FORMAT = "";
const QString SnpEffWorker::GENOME = "";
const QString SnpEffWorker::UPDOWN_LENGTH = "";
const QString SnpEffWorker::CANON = "";
const QString SnpEffWorker::HGVS = "";
const QString SnpEffWorker::LOF = "";
const QString SnpEffWorker::MOTIF = "";
const QString SnpEffFactory::ACTOR_ID("seff");
boolean |
Input/Output Ports
The element has 2 1 input portsport:
Name in GUI: Input assembly Variations
Name in Workflow File: in-assembly
Slots:
Slot In GUI | Slot in Workflow File | Type |
---|---|---|
Dataset name | dataset | string |
Source url | url | string |
Name in GUI: Input sequences
Name in Workflow File: in-sequencefile
Slots:
Slot In GUI | Slot in Workflow File | Type |
---|---|---|
Source url | url | string |
And 1 output port:
Name in GUI: Output Annotated variations
Name in Workflow File: out-variationsfile
Slots:
Slot In GUI | Slot in Workflow File | Type | |
---|---|---|---|
Variation track | variation-trackSource url | url | variation |