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GlobalFit specifications

Information


Unique identifier OMICS_17633
Name GlobalFit
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.2
Stability Stable
Requirements
methods, R(≥2.12.0), sybil(≥1.1.7), cplexAPI(≥1.2.1)
Source code URL https://cran.r-project.org/src/contrib/GlobalFit_1.2.tar.gz
Maintained Yes

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Versioning


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Documentation


Maintainer


  • person_outline Martin Lercher

Publication for GlobalFit

GlobalFit citations

 (7)
library_books

Polarization spectroscopy methods in the determination of interactions of small molecules with nucleic acids – tutorial

2018
Beilstein J Org Chem
PMCID: 5789433
PMID: 29441133
DOI: 10.3762/bjoc.14.5

[…] at a single dominant binding site occurs for each ligand. An excellent protocol on how to organize CD experiments and data processing is given in reference []. One of the intriguing new approaches is GlobalFit processing [–], whereby the data from all titration experiments (e.g., CD, fluorescence, ITC, etc.), done at approximately similar conditions (concentration range, buffer), are processed sim […]

library_books

Erroneous energy generating cycles in published genome scale metabolic networks: Identification and removal

2017
PLoS Comput Biol
PMCID: 5413070
PMID: 28419089
DOI: 10.1371/journal.pcbi.1005494

[…] For each network with EGCs, we then used a slightly modified version of GlobalFit [] to suggest a minimal number of reaction removals that eliminate all EGCs, allowing independent removals of forward and backward directions for reversible reactions. GlobalFit was original […]

library_books

Discovering missing reactions of metabolic networks by using gene co expression data

2017
Sci Rep
PMCID: 5288723
PMID: 28150713
DOI: 10.1038/srep41774

[…] utions, instead of finding solutions to solve the inconsistencies case by case. This is the approach that is also considered in very recent study of Hartleb et al.. In this study, the authors present GlobalFit, a bi-leveloptimization method, which identifies minimal set of model changes to achieve a model that can correctly predict all of the experimental data of growth and non-growth cases.Here, […]

library_books

Roles of Energy/Charge Cascades and Intermixed Layers at Donor/Acceptor Interfaces in Organic Solar Cells

2016
Sci Rep
PMCID: 4941572
PMID: 27404948
DOI: 10.1038/srep29529

[…] of the resulting edge was measured. At least six points were measured and averaged. XRR was performed by using a Rigaku Smartlab X-ray diffractometer, and the reflection patterns were fitted by using GlobalFit software (Rigaku). Monochromatized Cu Kα radiation (λ = 0.154 nm) was generated at 45 kV and 200 mA. To conduct XRR measurements of the interlayers, the samples were prepared by using the fl […]

library_books

An Empirical Polarizable Force Field Based on the Classical Drude Oscillator Model: Development History and Recent Applications

2016
PMCID: 4865892
PMID: 26815602
DOI: 10.1021/acs.chemrev.5b00505

[…] ere equivalent between the two anomers of each diastereomer, thus halving the total number of possible parameter combinations. The final strategy, targeting all conformers in one fitting run (called “Globalfit”) and enforcing equivalency among alcohol groups in the ring to avoid overfitting, yielded a single parameter set that was chosen as the final parameter set for both of the carbohydrate seri […]

library_books

Restoration of the third law in spin ice thin films

2014
Nat Commun
PMCID: 3959195
PMID: 24619137
DOI: 10.1038/ncomms4439

[…] s, two samples, x=60 and x=5, were characterized by X-ray reflectivity. reports the two reflectivity curves with related fits. The fits were performed with the Integrated Thin Film Analysis Software GlobalFit 1.3 (Rigaku Corporation). The background was not measured, but was included as a fitting parameter. The main purpose of this analysis was to extrapolate the thickness of the film and the den […]

Citations

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GlobalFit institution(s)
Institute for Computer Science and Cluster of Excellence on Plant Sciences, Heinrich Heine University, Düsseldorf, Germany; Institute for Mathematics, Heinrich Heine University, Düsseldorf, Germany
GlobalFit funding source(s)
This work was supported by the German Research Foundation DFG (IRTG 152).

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