Duplex Report

Duplex Report: Fields

Name	Data Type
Sample	str
Branches	dict[str, str]
Reference	str
Region	str
Region 5’ end	int
Region 3’ end	int
Length of the 5’ strand (strand-break position)	int
Numbers of clusters in the duplex (empty if unclustered)	list[int]
Source table files	list[str]
Checksum of reference sequence (SHA-512)	str
Time began	str
Time ended	str
Time taken (minutes)	float
Version of SEISMIC-RNA	str

Reference and Sample name both sources joined by __, and Region is always full because a duplex spans its entire fused sequence. Length of the 5' strand (strand-break position) is where the 5’ strand ends; the three-nucleotide linker follows it, and the 3’ strand begins after that. Source table files are the two source position tables, relative to the output directory; the entry for a strand given as a bare sequence (from --duplex-file or --duplex-sequence) is empty, because it has no data.

Duplex Report: Example

{
    "Sample": "sample1",
    "Branches": {
        "align": "",
        "idmut": "",
        "filter": "",
        "duplex": ""
    },
    "Reference": "refA__refB",
    "Region": "full",
    "Region 5' end": 1,
    "Region 3' end": 123,
    "Length of the 5' strand (strand-break position)": 60,
    "Numbers of clusters in the duplex (empty if unclustered)": [],
    "Source table files": [
        "sample1/filter/refA/full/filter-position-table.csv",
        "sample1/filter/refB/full/filter-position-table.csv"
    ],
    "Checksum of reference sequence (SHA-512)": "ec58bd95183a3cfef8a1200d5d45adef8f51ccf222ae401095f0040d7ca50f4ede3610182d2266268e522e576cd4174c02cc620c21eee5020833d50b368d8466",
    "Time began": "2026-09-02 at 23:25:14",
    "Time ended": "2026-09-02 at 23:25:14",
    "Time taken (minutes)": 0.0,
    "Version of SEISMIC-RNA": "0.26.0"
}