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lines changed Original file line number Diff line number Diff line change @@ -9,6 +9,9 @@ keywords:
99 - bam
1010 - cram
1111components :
12+ - samtools/index
13+ - samtools/faidx
14+ - samtools/stats
1215 - telseq
1316 - telogator2
1417 - telomerehunter
@@ -49,6 +52,18 @@ input:
4952 - run_telomerehunter :
5053 type : boolean
5154 description : Enable telomerehunter content profiling
55+ - length_estimator :
56+ type : string
57+ description : |
58+ Global override for length estimation tool. If set, all samples
59+ use this tool regardless of per-sample data_type.
60+ Values: 'telseq', 'telogator2', or null.
61+ - sniff_read_length :
62+ type : boolean
63+ description : |
64+ Enable read length sniffing via samtools stats. Used to auto-detect
65+ short vs long reads when data_type is not provided, and to
66+ cross-validate explicit data_type assignments.
5267output :
5368 - length_tsv :
5469 type : file
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