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The number of toggles can be counted by summing the dot product of the 'parent' Hadamard matrix (HP), with its shuffled version, the 'child' (HC).
Because the negative controls are a shuffled version of the original alignments, the total hits count is the same for the positive and negative control coevolution matrices for a given method, alphabet combination (with the exception of the LnLCorr methods, where the coevolution scores differ slightly between positive and negative control alignments).
The CpG positions in each shuffled version of the sequence were recorded.
A complete shuffled version of the cell's spiking activity was thus composed of all the shuffled laps' random spike trains on a trajectory.
We did simulation study by random shuffling of miRNA sequences to test whether our method could distinguish a miRNA from its shuffled version during the detecting process.
The false positive rate of the snoStrip tool was gauged by running the release version on a shuffled version of the pig genome.
Starting with network N G, we shuffle node labels with all other genes targeted in the screen to create a shuffled version of N G we refer to as.
To evaluate the significance of the CC-stability, we also computed a shuffled version of CCs (C ) after the two cells' firing rates were circularly slid with independent, random time intervals (slide-shuffling).
Background correlation coefficients between expression profiles were calculated for each randomly shuffled version of the selected subset, and the mean value and variance of these coefficients were calculated for the 1,000 shuffled subsets.
The FDR was calculated as described [ 34] and is the quotient of the number of all proteins identified in a shuffled database and the sum of all protein identifications in both the human IPI database and its shuffled version.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com