Details
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Improvement
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Status: Resolved
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Minor
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Resolution: Fixed
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Capacitor 1.6 (API 1.28)
Description
Add MIN_OBS (--min-obs) parameter to set the minimum number of reads to be left in a locus when the system is solved. It can be expressed as an absolute number of reads (>1) or as fraction of the observed read count [0..1].
With MIN_OBS > 0 the lp-solver will be forced to provide a deconvolution in all loci with > 0 annotation-mapped reads respectively read pairs. The derived quantifications may be variable in loci with less observations than changes that are necessary to perform the deconvolution.
Attachments
Issue Links
- relates to
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BARNA-373 Capacitor does not deconvolute locus when using only sam primary alignments
- Resolved