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Availability and implementation: A Python script implementing the empirical algorithm is freely available at http://sgjlab.org/empirical-go/.
An R script implementing the LRD is available in Text S1.
A script implementing this breakpoint-oriented approach (breakpoints.pl) is available under https://github.com/har-wradim/miscngs.
A perl script implementing this method is available at http://www.stat.osu.edu/~lkubatko/software/HybTree/.stat.osu.edu/~lkubatko/software/HybTree/
A Perl script implementing the algorithm is provided with a subroutine dist that wraps any external measure of distance.
For each group of promoters, quartiles and deciles for the motif positions were computed using a custom perl script implementing the median-unbiased estimator algorithm [ 79].
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Our Box Cox and curvature automated transformations are based on a Python script, implemented as an easy-to-use script tool in ArcGIS.
According to the SIA script implemented in the optimized manifold shown in Fig. 1a, nitrate reduction occurred as buffered sample was propelled through the micro-column for 25 s by a peristaltic pump revolving at 50% speed.
For the F-test, the FatiGO script implemented in R was used.
The supplementary R script implements all three methods using R and WinBUGS (Text S1).
A script implemented by us was used to align the sequences and to extract the insertions/deletions in Venter's chromosomes, considering three size classes (10 100, 100 1000, >1000 bp), as well as the single nucleotide polymorphisms (SNPs).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com