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Graphviz specifications

Information


Unique identifier OMICS_04785
Name Graphviz
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Graphviz citations

 (213)
library_books

ResearchMaps.org for integrating and planning research

2018
PLoS One
PMCID: 5933701
PMID: 29723213
DOI: 10.1371/journal.pone.0195271

[…] s. The HTML is supplemented by the Bootstrap framework (http://getbootstrap.com/) for standard components, while D3.js [] is used to modify the visualized graphs, which are created as SVG files using Graphviz []. Scripting is handled by JavaScript, often accompanied by the jQuery library (https://jquery.com/). We use PubMed’s interface (http://eutils.ncbi.nlm.nih.gov) to retrieve information about […]

call_split

Reliability and validity of a novel quality of life questionnaire for female patients with adolescent idiopathic scoliosis: Scoliosis Japanese Questionnaire 27: a multicenter, cross sectional study

2018
PMCID: 5883312
PMID: 29615021
DOI: 10.1186/s12891-018-2025-7
call_split See protocol

[…] onstruct structures, identified using CATPCA, and AIC factor plotting were performed using IBM SPSS Statistics, version 23 (IBM Corp, Armonk, NY, USA) and an open-source graph visualization software (Graphviz, http://www.graphviz.org), respectively. […]

library_books

Ligand Binding Site Structure Influences the Evolution of Protein Complex Function and Topology

2018
Cell Rep
PMCID: 5873459
PMID: 29562182
DOI: 10.1016/j.celrep.2018.02.085

[…] o the graphical output of GOrilla (), with directed graphs and using color coding to indicate the significance of the enrichment, the intensity of red indicating significance. Graphs were drawn using GraphViz. […]

library_books

BTNET : boosted tree based gene regulatory network inference algorithm using time course measurement data

2018
BMC Syst Biol
PMCID: 5861501
PMID: 29560827
DOI: 10.1186/s12918-018-0547-0

[…] hod. We used AdaBoost and gradient boosting implementation provided in the scikit-learn Python machine learning package. The visualization of an inferred gene regulatory network was done by using the Graphviz Python package version 0.4.10. For a fair comparison with GENIE3-time, we used the same parameter conditions as GENIE3-time from Jump3 [] on both BTNET-AdaBoost and BTNET-GraBoost (n_estimato […]

call_split

Acquisition of N Glycosylation Sites in Immunoglobulin Heavy Chain Genes During Local Expansion in Parotid Salivary Glands of Primary Sjögren Patients

2018
Front Immunol
PMCID: 5890187
PMID: 29662487
DOI: 10.3389/fimmu.2018.00491
call_split See protocol

[…] IGHV sequences from a dominant clone together with the germline sequence were aligned using ClustalW software. The output alignment was used as input in IgTree©. The output tree file is visualized by Graphviz 2.38. The root of the tree is the putative germline sequence and the clonally related IGHV sequences are assigned to either leaves or internal nodes of the tree. Each tree node represents a s […]

library_books

ATLANTIS Attractor Landscape Analysis Toolbox for Cell Fate Discovery and Reprogramming

2018
Sci Rep
PMCID: 5824948
PMID: 29476134
DOI: 10.1038/s41598-018-22031-3

[…] weights, logic rules-based node updates, network modification via node and edge knock-down, cell fate determination using user-defined logic and network visualization using MATLAB Biograph object and Graphviz (Fig. ). The analysis pipeline includes both deterministic as well as probabilistic analyses of user-defined networks (Fig. ). Attractors can be visualized in the form of attractor landscapes […]

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