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These analyses (and all those reported below) were conducted on the data aligned to the onset closure alignment point (Fig. 1 a).
The data aligned with the results of mini-primer sets analysis in an amplicon length-dependent manner; the shorter the amplicon, the more evident the endogenous sequence became.
For experiment 3, we resorted the data aligned to a switch in the prior's mean and then binned all the data in the subsequent 10 trials.
Indeed, the data aligned better than we, considering the significant challenges when approaching complex systems, had expected.
The data aligned using Bowtie 2, regardless of the normalization methods, were different from the remaining combinations of aligners and normalization techniques used.
Figure 2 shows the difference in normalization of the data aligned using BWA with one mismatch allowed across the entire read.
The BayesPeak software package fits a hidden Markov model (HMM) to the data (aligned reads) as follows: the genome is divided into 'jobs', i.e. short regions on which the algorithm is run independently.
This pipeline uses PASA [ 17] to generate a training set of genes from the transcript data, aligns the transcripts to the genome and uses hints generated from the alignment to assist in gene prediction.
The theoretical framework that emerged from the qualitative data aligns with a conceptual model that integrates the SCT and HSF.
Analysis of the 100bp HiSeq sequencing reads involved custom pipelines to preprocess the raw data, align to the poplar reference genome, and identify putative single nucleotide polymorphisms (SNPs).
The extra density in the model was necessary to ensure that the extra mass in the experimental data aligned properly.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com