The unique identifier approach might seem redundant to the SHA512 checksum, but it allowed us to detect duplicates for which the files were different, because of differences in the CEL file format used (i.e. CEL format version 3 and 4 generated with MAS5 and Gene Chip Operating Software, respectively).
To estimate the divergence of the dog from the fox, the number of nucleotide differences reported in the file "454AllDiffs.txt" and identified between dog and fox for which fox reads did not differ from each other, was compared to the number of nucleotide differences observed between fox reads.
Over 90% of the differences in the Roche files were common to all eight strains and hence were false positive candidates for mutations.
The different sources for the population growth in Nigeria over time resulted in slightly different total population values in 2013; ideally this would have been resolved to ensure the analysis provided a simple description of the differences in the two files.
For Mince, the maximum difference in the compressed file size between the largest and smallest files over the 10 trials was 43, 410 bytes or 0.02% of the average compressed file size.
However, due to Scratch using an irregular svg format, some differences may occur in the file, for instance, some text may be missing, or a color may be a slightly different shade (for instance, dark green to slightly darker green).
The photosynthetic characteristics Pn, Cond, Ci, and Trmmol of the 1200 F1 individuals had a continuous distribution indicating that all measured traits were quantitatively inherited and each trait showed significant differences in the population (Additional file 1: Figure S1).
As no conflicts were found (e.g. well-supported differences in the topology; Additional file 3: Figure S1), the four gene fragments were combined with Phyutility [ 44] for further phylogenetic analysis.
For instance, compared to control, the communities with mutualism tend to minimize differences in the initial abundance (Additional file 1: Figure S11) while competitive communities intensify differences in the initial abundance.
NRC and NRCrel values were analyzed with the One-Way ANOVA procedure and/or the Kruskal-Wallis test [ 122] to determine significant differences in the expression patterns (Additional file 1: Tables S1, S2, and S4).
