Flatten Sequence¶
The "flattenSequence" transform flattens strings such as FASTA sequences into
data objecsts with position and character fields.
Parameters¶
as-
Type: array
Name of the fields where the zero-based index number and flattened sequence letter are written to.
Default:
["pos", "sequence"] field-
Type: string (field name)
The field to flatten.
Default:
"sequence"
Example¶
Given the following data:
| identifier | sequence |
|---|---|
| X | AC |
| Y | ACTG |
... and parameters:
{
"type": "flattenSequence",
"field": "sequence",
"as": ["base", "pos"]
}
The sequences are flattened into:
| identifier | sequence | base | pos |
|---|---|---|---|
| X | AC | A | 0 |
| X | AC | C | 1 |
| Y | ACTG | A | 0 |
| Y | ACTG | C | 1 |
| Y | ACTG | T | 2 |
| Y | ACTG | G | 3 |