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The marker set is a modification of the Cooperative Human Linkage Centre Screening Set (http://gai.nci.nih.gov/CHLC/, version 6.0), showing an average heterozygosity of 0.72 in our data set.
6. Select the smallest k-marker set such that the LOOCV is maximized over all TSk, k = 1,..., B. If the marker set is not unique, randomly select one of them as the final set.
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The marker set was well visible throughout the stance phase of gait, even in a camera configuration typical of gait analysis of the full body.
The marker set was filtered according to pair-wise LD (r2 cut-off = 0.2) in order to remove correlated markers.
Redundancy in the marker set was removed based on the sequence similarity using CAP3 [ 70] with 98%% identity.
All 13 metabolites of the marker set were significant, with P values ranging from 5.18 × 10−6 to 3.87 × 10−32.
In all of our analyses we have used 2 different values for Minimum flank with Rank differential set to 3. The marker set was obtained from the six species projection of the 8-way Multiz alignment [ 17] from the UCSC genome resource.
The marker set was divided into three, five, or seven regions per chromosome and the trait values for the genotypes were generated by summing randomly generated locally epistatic effects from these regions and an independent error term with variance adjusted so that the heritability of the trait was 0.5.
The RMP for this marker set is 3×10-1000 (essentially zero).
The marker sets were obtained from the Natural website (CviLer, www.dpw.wau.nl/natural/), the BaySha website (http://dbsgap.versailles.inra.fr/vnat/Documentation/33/DOC.html) and Singer et al. [41] for ColLer.
In fish, the marker sets were not totally conserved: on one side, the CITED4 gene was present, on the other side, two additional flanking genes MANEAL and SF3A3 (Table S4) were present in inverse orientation to the conserved LIN28.
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