Open Access
YASARA View—molecular graphics for all devices—from smartphones to workstations
Publication type: Journal Article
Publication date: 2014-07-04
scimago Q1
wos Q1
SJR: 2.451
CiteScore: 9.6
Impact factor: 5.4
ISSN: 13674803, 13674811, 14602059
PubMed ID:
24996895
Biochemistry
Computer Science Applications
Molecular Biology
Statistics and Probability
Computational Mathematics
Computational Theory and Mathematics
Abstract
Today's graphics processing units (GPUs) compose the scene from individual triangles. As about 320 triangles are needed to approximate a single sphere-an atom-in a convincing way, visualizing larger proteins with atomic details requires tens of millions of triangles, far too many for smooth interactive frame rates. We describe a new approach to solve this 'molecular graphics problem', which shares the work between GPU and multiple CPU cores, generates high-quality results with perfectly round spheres, shadows and ambient lighting and requires only OpenGL 1.0 functionality, without any pixel shader Z-buffer access (a feature which is missing in most mobile devices).YASARA View, a molecular modeling program built around the visualization algorithm described here, is freely available (including commercial use) for Linux, MacOS, Windows and Android (Intel) from www.YASARA.org.elmar@yasara.orgSupplementary data are available at Bioinformatics online.
Found
Nothing found, try to update filter.
Found
Nothing found, try to update filter.
Top-30
Journals
|
5
10
15
20
25
30
35
40
45
|
|
|
International Journal of Molecular Sciences
42 publications, 3.2%
|
|
|
Scientific Reports
40 publications, 3.05%
|
|
|
Journal of Biomolecular Structure and Dynamics
39 publications, 2.97%
|
|
|
Molecules
34 publications, 2.59%
|
|
|
Journal of Biological Chemistry
20 publications, 1.53%
|
|
|
ChemBioChem
18 publications, 1.37%
|
|
|
PLoS ONE
17 publications, 1.3%
|
|
|
International Journal of Biological Macromolecules
16 publications, 1.22%
|
|
|
Journal of Medicinal Chemistry
15 publications, 1.14%
|
|
|
Nature Communications
14 publications, 1.07%
|
|
|
Journal of Molecular Liquids
14 publications, 1.07%
|
|
|
Journal of Chemical Information and Modeling
13 publications, 0.99%
|
|
|
European Journal of Medicinal Chemistry
12 publications, 0.92%
|
|
|
Journal of Molecular Structure
10 publications, 0.76%
|
|
|
RSC Advances
10 publications, 0.76%
|
|
|
FEBS Journal
9 publications, 0.69%
|
|
|
Viruses
9 publications, 0.69%
|
|
|
Bioorganic Chemistry
9 publications, 0.69%
|
|
|
Food Chemistry
9 publications, 0.69%
|
|
|
Biomolecules
8 publications, 0.61%
|
|
|
Chemistry - A European Journal
8 publications, 0.61%
|
|
|
Protein Science
8 publications, 0.61%
|
|
|
Biochemistry
8 publications, 0.61%
|
|
|
ACS Omega
7 publications, 0.53%
|
|
|
Applied Microbiology and Biotechnology
7 publications, 0.53%
|
|
|
Biochimica et Biophysica Acta - Biomembranes
7 publications, 0.53%
|
|
|
Catalysts
6 publications, 0.46%
|
|
|
Marine Drugs
6 publications, 0.46%
|
|
|
Computational and Structural Biotechnology Journal
6 publications, 0.46%
|
|
|
5
10
15
20
25
30
35
40
45
|
Publishers
|
50
100
150
200
250
300
|
|
|
Elsevier
295 publications, 22.5%
|
|
|
Springer Nature
197 publications, 15.03%
|
|
|
MDPI
166 publications, 12.66%
|
|
|
Wiley
156 publications, 11.9%
|
|
|
American Chemical Society (ACS)
101 publications, 7.7%
|
|
|
Cold Spring Harbor Laboratory
66 publications, 5.03%
|
|
|
Taylor & Francis
56 publications, 4.27%
|
|
|
Royal Society of Chemistry (RSC)
39 publications, 2.97%
|
|
|
Frontiers Media S.A.
38 publications, 2.9%
|
|
|
Oxford University Press
28 publications, 2.14%
|
|
|
Public Library of Science (PLoS)
21 publications, 1.6%
|
|
|
American Society for Biochemistry and Molecular Biology
19 publications, 1.45%
|
|
|
American Society for Microbiology
12 publications, 0.92%
|
|
|
Bentham Science Publishers Ltd.
10 publications, 0.76%
|
|
|
Hindawi Limited
8 publications, 0.61%
|
|
|
Mary Ann Liebert
5 publications, 0.38%
|
|
|
King Saud University
5 publications, 0.38%
|
|
|
American Association for the Advancement of Science (AAAS)
5 publications, 0.38%
|
|
|
Microbiology Society
4 publications, 0.31%
|
|
|
Institute of Electrical and Electronics Engineers (IEEE)
4 publications, 0.31%
|
|
|
European Molecular Biology Organization
4 publications, 0.31%
|
|
|
Rockefeller University Press
4 publications, 0.31%
|
|
|
The Endocrine Society
3 publications, 0.23%
|
|
|
Impact Journals
3 publications, 0.23%
|
|
|
Ovid Technologies (Wolters Kluwer Health)
3 publications, 0.23%
|
|
|
Pleiades Publishing
3 publications, 0.23%
|
|
|
AIP Publishing
3 publications, 0.23%
|
|
|
Walter de Gruyter
3 publications, 0.23%
|
|
|
Oriental Scientific Publishing Company
3 publications, 0.23%
|
|
|
50
100
150
200
250
300
|
- We do not take into account publications without a DOI.
- Statistics recalculated weekly.
Are you a researcher?
Create a profile to get free access to personal recommendations for colleagues and new articles.
Metrics
1.3k
Total citations:
1311
Citations from 2024:
286
(21%)
Cite this
GOST |
RIS |
BibTex |
MLA
Cite this
GOST
Copy
Krieger E., Vriend G. YASARA View—molecular graphics for all devices—from smartphones to workstations // Bioinformatics. 2014. Vol. 30. No. 20. pp. 2981-2982.
GOST all authors (up to 50)
Copy
Krieger E., Vriend G. YASARA View—molecular graphics for all devices—from smartphones to workstations // Bioinformatics. 2014. Vol. 30. No. 20. pp. 2981-2982.
Cite this
RIS
Copy
TY - JOUR
DO - 10.1093/bioinformatics/btu426
UR - https://doi.org/10.1093/bioinformatics/btu426
TI - YASARA View—molecular graphics for all devices—from smartphones to workstations
T2 - Bioinformatics
AU - Krieger, Elmar
AU - Vriend, Gert
PY - 2014
DA - 2014/07/04
PB - Oxford University Press
SP - 2981-2982
IS - 20
VL - 30
PMID - 24996895
SN - 1367-4803
SN - 1367-4811
SN - 1460-2059
ER -
Cite this
BibTex (up to 50 authors)
Copy
@article{2014_Krieger,
author = {Elmar Krieger and Gert Vriend},
title = {YASARA View—molecular graphics for all devices—from smartphones to workstations},
journal = {Bioinformatics},
year = {2014},
volume = {30},
publisher = {Oxford University Press},
month = {jul},
url = {https://doi.org/10.1093/bioinformatics/btu426},
number = {20},
pages = {2981--2982},
doi = {10.1093/bioinformatics/btu426}
}
Cite this
MLA
Copy
Krieger, Elmar, and Gert Vriend. “YASARA View—molecular graphics for all devices—from smartphones to workstations.” Bioinformatics, vol. 30, no. 20, Jul. 2014, pp. 2981-2982. https://doi.org/10.1093/bioinformatics/btu426.