Read Sequence Element
Input one or more files with nucleotide or protein sequences.
A file may also contain annotations. Any format supported by UGENE is allowed (GenBank, FASTA, etc.).
The element outputs message(s) with the sequence and annotations data.
See the list of all available formats here.
Element type: read-sequence
Parameters in GUI
| Parameter | Description | Default value | Parameter in Workflow File | Type |
|---|---|---|---|---|
| Input files | Semicolon-separated list of datasets to the input files. | url-in | string | |
| Mode | If the file contains more than one sequence, “split” mode sends them as is to output, while “merge” appends all the sequences and outputs the merged sequence. | Split | mode | numeric |
| Available values are: 0 - for split mode 1 - for merge mode | ||||
| Merging gap | In the “merge” mode, inserts the specified number of gaps between the original sequences. This is helpful, for example, to avoid finding false positives at the merge boundaries. | 10 | merge-gap | numeric |
| Sequence count limit | Split mode only. Read only the first N sequences from each file. Set 0 value for reading all sequences. | 0 | sequence-count-limit | numeric |
| Accession filter | Only reports a sequence with the specified accession (ID). | accept-accession | string |
Input/Output Ports
The element has 1 output port:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Sequence | sequence | sequence |
| Set of annotations | annotations | annotation-table |
| Source URL | url | string |