pairwise_alignment

Active

declared in 1.1.0

Global (Needleman-Wunsch) or local (Smith-Waterman) pairwise alignment of two sequences with match/mismatch/gap scoring.

Parameters schema

{
  "type": "object",
  "required": [
    "seqA",
    "seqB"
  ],
  "properties": {
    "gap": {
      "type": "number",
      "default": -2,
      "description": "Linear gap penalty (per gap position)."
    },
    "mode": {
      "enum": [
        "global",
        "local"
      ],
      "type": "string",
      "default": "global"
    },
    "seqA": {
      "type": "string",
      "description": "First sequence (raw or FASTA; nucleotide or protein)."
    },
    "seqB": {
      "type": "string",
      "description": "Second sequence (raw or FASTA; nucleotide or protein)."
    },
    "match": {
      "type": "number",
      "default": 1,
      "description": "Match score."
    },
    "mismatch": {
      "type": "number",
      "default": -1,
      "description": "Mismatch penalty."
    }
  },
  "additionalProperties": false
}

What this tool wraps· 0 endpoints

min confidence0.70 0.50

No endpoints wrapped at confidence ≥ 0.50.

Parent server

com.seqbench/workbench

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