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The duplicate parameters, T dupl and N dupl, are selected in such a way to keep the PDR as high as possible and to reduce the average number of packets.
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Fig. 3 Solving the problem of duplicated parameters.
By wrapping the separated workflow definition in its own task, we were able to solve the problem of duplicated parameters.
Each data point was collected in duplicate and kinetic parameters were obtained using GraphPad Prism v3.0 software.
Each sample and a no-template control was run in duplicate with thermocycler parameters of 95° for 10 min, 40 cycles of 95° for 15 sec and 60° for 60 sec, and a subsequent dissociation curve to confirm the absence of nonspecific products.
To remove duplicate channels, a parameter called the cutoff ratio is introduced.
Experimental assays were performed in duplicate for each parameter of the individual fish of all seven groups and the mean ± SE for each group was calculated.
First, the thresholding is independently conducted with respect to the two detection methods to reduce the duplicate detections with thresholding parameters (thr_{SS}) and (thr_{JH}).
The GDM attempts to make inference from observed retention patterns about the mechanisms of duplicate retention by bounding parameters to ranges which are indicative of specific retention patterns.
This work is an attempt at creating a rigorous "null" model of duplicate loss, based on parameters μ, ϕ and θ.
The trimmed and size-selected reads were then assembled using Newbler with the following parameters: "use duplicate reads"; "extend low-depth overlaps"; "minimum read length = 45 bp"; "read limited to one contig"; and "single ACE file".
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com