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RF++ also produces proportions of votes for each class which gives an estimate of the probability that the subject (and/or the replicate) falls within a particular class.
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The number of reads from each replicate falling on each exon was counted using HTSeq (Anders et al., 2015) in the UNION mode, and the differential expression levels across all of samples were calculated using DESeq (Anders and Huber, 2010).
He invented the endlessly replicated falling house gag, and did all of his own stunts with remarkably little cinematic trickery.
After standardization, correlation among non-replicates fell to zero ( Figure S1).
The scatter plots demonstrate a high degree of reproducibility with microarray replicates, falling close to a 45° reference line.
Differences were judged as significant if the replicates fell outside the range of variation seen in the wild type samples.
We noticed that, under the starvation conditions, variation of NAIs of individual cells increased if compared with that in the rich medium while average NAIs of biological replicates fell into a narrower range.
Those eQTL that failed to validate between replicates fell into two categories: 1) non-significant p-value in replicate 2 (12.5%, n = 1578) or 2) inconsistent map position (0.8%, n = 111) such that the position of the strongest eQTL failed to reproduce between replicates.
Within the b2 ~ [0 0.25] range the replicator community reaches the stationary state in all simulations, with the mean frequency of replicators (averaged over the 100 replicate simulations) falling between 0.2 and 0.35.
For microarray analysis, data points from technical replicate spots falling outside of mean ±1.2 times standard deviation were discarded for every gene.
Of the 182 assays tested repeatedly, for only 26 did 95% of the replicate measurements fall within a third of the mean value.
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