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In the new method, pebbles are packed by two processes: a sequential generation process allowing overlaps and an overlap elimination process based on a simplified normal contact force model.
Notice that clusters that are closer to the sink will need more bandwidth, so that it is possible that the last activity windows will be much larger than the first ones; this has to be taken into account when analyzing the possibility of allowing overlaps.
Finally, recall is also particularly low for cell types in the development data set, even when allowing overlaps.
The measure used is the number of occurrences of a motif of 20 consecutive Hs in a window of 1000 bases on both strands allowing two mismatches and allowing overlaps between motifs.
Although not qualitatively different from the fifth collapse step (described in the paragraph to follow), which allowed sequences to overlap only partially, the full-overlap requirement provided numerous algorithmic advantages over the equivalent operation allowing overlaps.
In fact, both MCL and RNSC basically partitioned the PPI network simultaneously into non-overlapping clusters while the remaining approaches are more sensible by generating clusters in a one-by-one manner and allowing overlaps in the clusters/complexes.
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This paper presents a deconvolution method allowing overlapping multiple responses to be disentangled.
Each cable anchor position is associated to an independent design variable allowing overlapping stay cables as well as different spacing along the deck.
Because of limitations of classical clustering methods, numerous alternative module detection methods have been proposed, which improve upon clustering by handling co-expression in only a subset of samples, modelling the regulatory network, and/or allowing overlap between modules.
Surprisingly, neither biclustering nor direct NI, nor iterative NI methods outperform clustering methods, although in theory they should offer several advantages by allowing overlap, modelling transcriptional regulation and/or looking for local co-expression effects (Fig. 2b).
PARCEL problem decomposition relies entirely on human inspiration, allowing overlap and competing decompositions.
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