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One is to space waypoints uniformly in time and the other is to let the waypoints subject to a maximum spacing constrain.
Using the R/qtl package (est.map function with Lander-Green algorithm), we constructed a genetic linkage map with an average distance of 0.86 cM between adjacent bin markers and a maximum spacing between markers ranging from 9.93 cM for Chr03 to 5.84 cM for Chr10.
A maximum spacing of 68 bases would correspond to 6 helical turns according to our phasing.
By searching for Cbf1 and Met31 sites together, with a maximum spacing of 100 bases between the zero positions of the binding components (Fig. 1) and the downstream component could be a maximum of 1000 bases upstream of the gene start, the prediction was better.
The pseudomarker positions were placed at evenly spaced locations between markers, with a maximum spacing of 0.5 cM between adjacent markers or pseudomarkers.
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Considering the practical operation, the second method is adopted to set a maximum space between two waypoints, which is an optimization problem obtaining optimal points on the curve to minimize the distance function.
Time clustering within a 3-month window was combined with space clustering in an area with a maximum space window size of 15% of the total space.
Kulldorff (24 ) recommended using a maximum space window size of up to 50% of the total space, while others reported using smaller values on the basis of the geographic boundaries studied.
A maximum distance for the spacing between the openings was suggested in order to optimally use the derived fomulae.
Fault spacing averages approximately 2 km with a minimum and maximum spacing of 200 to 10 km.
Given the 13 kb-resolution of the CGH chip, a 25-kb maximum spacing enabled us to detect all relevant genes.
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