Alignment & variants

Which product is in this tube (mixture from one Sanger read)

Decompose one Sanger trace into fractions over a set of candidate molecules — the intended construct, the empty backbone, a double insert, a flipped part — instead of onto a generic indel ladder. Non-negative least squares against the candidates' own sequences, so no molecule is ever assigned a negative share. Reports the R² of the fit, which is what says whether the tube holds anything outside the candidate set, and GROUPS candidates the read cannot tell apart rather than splitting their share between them. Feed it the alternatives from assembly_outcomes.

post/outcome_deconvolve

Request

  • Base URL: https://seqbench.com/api/v1
  • URL: https://seqbench.com/api/v1/outcome_deconvolve
  • Auth: none required

Request body

readBasesstring required

Base calls of the read, e.g. from parse_sanger_trace.

candidatesobject[] required

The molecules this reaction could have produced, as { id, label, sequence, circular? }. Between 2 and 24; assembly_outcomes' intended plus alternatives is the intended source.

Response

Tool ran successfully.

okunknown required
toolstring required

The tool slug that ran.

resultobject required

Tool-specific output object. Its shape depends on the tool — call GET /{tool} or see the docs for each tool's fields.

Example response

{
  "provenance": {
    "apiVersion": "1.1.0"
  }
}

Changes

No recorded changes to this operation across all 1 revision of this API.