Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: Computation Protein Design instances with small tree-width: selection
  based on coarse approximated 3D average position volume   This paper proposes small tree-width graph decomposition computational
protein design CFN instances defined according to the model [1] with protocol
defined by Simononcini et al [2] . The proteins used in the benchmark have been
selected in the PDB (not on their biological interest) to explore the
efficiency of global search method based on tree-width decomposition. The
instances are bigger than those previously proposed in the paper [2] with one
backbone relaxation and the aka Beta November 2016 Rosetta force-field [3]. The
benchmark includes 21 proteins selected with a low level of sequences identity
(40%) . Those instances have been selected on the basis of 3D criteria by
applying a decreasing average coarse volume occupancy filter by Amino Acid
(-i.e. by CFN variable) . The instances characteristic (see Table 1) contain
from 130 up to n = 282 variables with a maximum domain size from 383 to 438,
and between 1706 and 6208 cost functions. The min-fill tree-width ranges from
21 to 68, and from 0.16 to 0.34 for a normalized tree width. Those instances
have been used for UDGVNS search algorithm[4] benchmarking. This approach is
suitable for evaluation of search methods that exploit the notion of graph
decomposition.

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The categories of this paper are: chem-ph
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The categories of this paper are: econ
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The categories of this paper are: ao-sci
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The categories of this paper are: atom-ph
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The categories of this paper are: eess
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The categories of this paper are: comp-gas
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The categories of this paper are: bayes-an
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The categories of this paper are: hep-ph
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The categories of this paper are: q-alg
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The categories of this paper are: dg-ga
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The categories of this paper are: hep-lat
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The categories of this paper are: mtrl-th
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The categories of this paper are: funct-an
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The categories of this paper are: nucl-ex
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The categories of this paper are: gr-qc
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The categories of this paper are: solv-int