Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: MetaboTools: A comprehensive toolbox for analysis of genome-scale
  metabolic models   Metabolomic data sets provide a direct read-out of cellular phenotypes and
are increasingly generated to study biological questions. Our previous work
revealed the potential of analyzing extracellular metabolomic data in the
context of the metabolic model using constraint-based modeling. Through this
work, which consists of a protocol, a toolbox, and tutorials of two use cases,
we make our methods available to the broader scientific community. The protocol
describes, in a step-wise manner, the workflow of data integration and
computational analysis. The MetaboTools comprise the Matlab code required to
complete the workflow described in the protocol. Tutorials explain the
computational steps for integration of two different data sets and demonstrate
a comprehensive set of methods for the computational analysis of metabolic
models and stratification thereof into different phenotypes. The presented
workflow supports integrative analysis of multiple omics data sets.
Importantly, all analysis tools can be applied to metabolic models without
performing the entire workflow. Taken together, this protocol constitutes a
comprehensive guide to the intra-model analysis of extracellular metabolomic
data and a resource offering a broad set of computational analysis tools for a
wide biomedical and non-biomedical research community.

1
The categories of this paper are: cs
14
The categories of this paper are: math-ph
4
The categories of this paper are: cond-mat
36
The categories of this paper are: cmp-lg
18
The categories of this paper are: econ
13
The categories of this paper are: quant-ph
17
The categories of this paper are: q-fin
35
The categories of this paper are: mtrl-th
26
The categories of this paper are: bayes-an
23
The categories of this paper are: solv-int
7
The categories of this paper are: hep-th
19
The categories of this paper are: eess
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The categories of this paper are: nucl-ex
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The categories of this paper are: acc-phys
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The categories of this paper are: atom-ph
5
The categories of this paper are: gr-qc