Description
Count barcode ambiguity across supplied cell assignments.
Computational biology distinguishes discrete counts, probabilistic weights, sequence indexes and logical rules. A supplied event or record flag can be summarized without simulating a stochastic process, validating a sequence annotation or establishing a biological mechanism.
Count barcode ambiguity across supplied cell assignments.
When to use this tool
Use Cell Barcode Ambiguity Count when checking the stated count, sequence, Boolean-rule or support convention.
How to use the tool and how it works
- Enter observedBarcodes, assignedCells, unassignedToken. Keep parallel arrays aligned. Use the units and conventions below.
- Run the tool. Correct any format, range, or cross-field input error before interpreting the output.
- Read ambiguousBarcodes, assignedBarcodes, unassignedRecords. Use the output convention below.
Count barcode ambiguity across supplied cell assignments. Require aligned observedBarcodes/assignedCells; ignore unassignedToken records in grouping, count distinct assigned barcodes and those with more than one distinct cell.1
| Input field | Meaning and units | Accepted input |
|---|---|---|
| observedBarcodes | Observed Barcodes | Required. Array of text; maximum UTF-16 length 8192; maximum items 256. |
| assignedCells | Assigned Cells | Required. Array of text; maximum UTF-16 length 8192; maximum items 256. |
| unassignedToken | Unassigned Token | Required. Text; maximum UTF-16 length 8192. |
| Output field | Interpretation | Returned shape |
|---|---|---|
| ambiguousBarcodes | Ambiguous Barcodes | Required. Safe integer. |
| assignedBarcodes | Assigned Barcodes | Required. Safe integer. |
| unassignedRecords | Unassigned Records | Required. Safe integer. |
{
"input": {
"observedBarcodes": [
"a",
"a",
"b"
],
"assignedCells": [
"c1",
"c2",
"?"
],
"unassignedToken": "?"
},
"output": {
"ambiguousBarcodes": 1,
"assignedBarcodes": 1,
"unassignedRecords": 1
}
}Limitations and assumptions
- Unassigned records are counted separately; sequencing error, actual barcode collision and biological doublets are not inferred.
- Inputs must satisfy both the field types and the cross-field conditions above. Invalid input causes an error; a successful false flag or documented placeholder is a different result.
Alternative or Complementary methods
Use the complete sequence, identifier universe or stochastic/logical model for actual inference, sampling and uncertainty analysis.
References
Similar or alternative tools
- Gene Set Universe Intersection Count
Count distinct gene IDs inside and outside a supplied universe.
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