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However, the relatively small value by all the methods, the 3DZD, USR, and SIMCOMP, suggests that all the methods compared here would not effective from an early recognition perspective for the anti-HIV dataset.
Limitations of both methods compared here were found: the heterogeneity of induced sputum appearances makes automated image analysis challenging.
When utilizing the default behaviors of the methods compared here for mapping NHP data to a human reference, we recommend Stampy for maximum sensitivity within known genes.
All of the methods compared here are greedy methods, in that once a match has been made, it is not reconsidered.
When applied to the smallest of the models treated here, the wall clock computation time was about 15 hours in contrast to wall clock computation times of less than a minute for the methods compared here.
These differences exceeded those observed between cells isolated by the various methods compared here (Fig. 1C, 2C and Supporting Information Fig. 3) and grew progressively more pronounced with prolonged storage (Fig. 2C and D).
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This method was not compared here as it was developed for yeast transcriptome analysis and is not directly applicable to our ChIP-chip data.
Two methods originally proposed to address the HIV-human PPI prediction problem were compared here.
It is to be noted that these studies relied on different immobilization methods compared to what was used here, including streptavidin-biotin linkage and thiolated DNA attachment [ 41– 41].
In fact, the authors [16] used a totally different method compared to the one used here.
Note that the two methods we compare to here are strictly linear, in contrast with the SV extension we propose here of the L0-AbS method (highly non-linear).
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