-
1
-
-
0345059376
-
Announcing the worldwide Protein Data Bank
-
14634627
-
Berman H Henrick K Nakamura H: Announcing the worldwide Protein Data Bank. Nature Struct Biol. 2003;10(12):980. 14634627 10.1038/nsb1203-980
-
(2003)
Nature Struct Biol
, vol.10
, Issue.12
, pp. 980
-
-
Berman, H.1
Henrick, K.2
Nakamura, H.3
-
2
-
-
84931280144
-
The Dataverse project
-
Reference Source
-
The Dataverse project.2015. Reference Source
-
(2015)
-
-
-
3
-
-
84973228996
-
-
Dryad, Reference Source
-
Dryad. 2014. Reference Source
-
(2014)
-
-
-
4
-
-
84923089768
-
figshare
-
Reference Source
-
figshare. 2014. Reference Source
-
(2014)
-
-
-
5
-
-
84931267588
-
Zenodo
-
Reference Source
-
Zenodo. 2014. Reference Source
-
(2014)
-
-
-
6
-
-
84931280145
-
Academic torrents
-
Reference Source
-
Academic torrents. 2014. Reference Source
-
(2014)
-
-
-
7
-
-
77957944901
-
Computational science: .Error
-
20944712
-
Merali Z: Computational science: .Error. Nature. 2010;467(7317):775-777. 20944712 10.1038/467775a
-
(2010)
Nature
, vol.467
, Issue.7317
, pp. 775-777
-
-
Merali, Z.1
-
8
-
-
84877785791
-
Computational science. Troubling trends in scientific software use
-
23687031
-
Joppa LN McInerny G Harper R: Computational science. Troubling trends in scientific software use. Science. 2013;340(6134):814-815. 23687031 10.1126/science.1231535
-
(2013)
Science
, vol.340
, Issue.6134
, pp. 814-815
-
-
Joppa, L.N.1
McInerny, G.2
Harper, R.3
-
9
-
-
84976773758
-
The emperor's old clothes
-
Hoare CAR: The emperor's old clothes. Commun ACM. 1981;24(2):75-83. 10.1145/358549.358561
-
(1981)
Commun ACM
, vol.24
, Issue.2
, pp. 75-83
-
-
Hoare, C.A.R.1
-
11
-
-
84923850013
-
Best Practices for Computational Science: Software Infrastructure and Environments for Reproducible and Extensible Research
-
Reference Source
-
Stodden V Miguez S: Best Practices for Computational Science: Software Infrastructure and Environments for Reproducible and Extensible Research. Soc Sci Res Network. 2013;2322276. Reference Source
-
(2013)
Soc Sci Res Network
, pp. 2322276
-
-
Stodden, V.1
Miguez, S.2
-
12
-
-
85055586929
-
Implementing Reproducible Research
-
Reference Source, Chapman and Hall/CRC.
-
Stodden V Leisch F Peng RD: Implementing Reproducible Research. Chapman and Hall/CRC. 2014. Reference Source
-
(2014)
-
-
Stodden, V.1
Leisch, F.2
Peng, R.D.3
-
13
-
-
84924292102
-
Interactive notebooks: Sharing the code
-
25373681
-
Shen H: Interactive notebooks: Sharing the code. Nature. 2014;515(7525):151-152. 25373681 10.1038/515151a
-
(2014)
Nature
, vol.515
, Issue.7525
, pp. 151-152
-
-
Shen, H.1
-
14
-
-
84931280147
-
ActivePapers - computational science made reproducible and publishable
-
Reference Source
-
Hinsen K: ActivePapers - computational science made reproducible and publishable. 2014. Reference Source
-
(2014)
-
-
Hinsen, K.1
-
15
-
-
84903304936
-
The DOI system
-
Reference Source
-
The DOI system. 2014. Reference Source
-
(2014)
-
-
-
16
-
-
85013541444
-
Philosophiae Naturalis Principia Mathematica
-
Reference Source
-
Newton I: Philosophiae Naturalis Principia Mathematica. R Soc. 1686. Reference Source
-
(1686)
R Soc
-
-
Newton, I.1
-
17
-
-
84931280149
-
Archivematica
-
Reference Source
-
Archivematica.2015. Reference Source
-
(2015)
-
-
-
18
-
-
84867030335
-
A guide to undefined behavior in C and C++
-
Reference Source
-
Regehr J: A guide to undefined behavior in C and C++. Reference Source
-
-
-
Regehr, J.1
-
19
-
-
0020997912
-
Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features
-
6667333
-
Kabsch W Sander C: Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers. 1983;22(12):2577-2637. 6667333 10.1002/bip.360221211
-
(1983)
Biopolymers
, vol.22
, Issue.12
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
20
-
-
84931280150
-
DSSP 2.1.0
-
Reference Source
-
Hekkelman M: DSSP 2.1.0. Reference Source
-
-
-
Hekkelman, M.1
-
21
-
-
84857603676
-
A Framework for Software Preservation
-
10.2218/ijdc.v5i1.145
-
Matthews B Shaon A Bicarregui J: A Framework for Software Preservation. Int J Digit Curation. 2010;5(1):91-105. 10.2218/ijdc.v5i1.145
-
(2010)
Int J Digit Curation
, vol.5
, Issue.1
, pp. 91-105
-
-
Matthews, B.1
Shaon, A.2
Bicarregui, J.3
-
22
-
-
84931265337
-
A Case Study in Preserving a High Energy Physics Application
-
Reference Source
-
Haiyan M Matthias W Peter I: A Case Study in Preserving a High Energy Physics Application. DASPOS Technical Report 2. 2014;1-9. Reference Source
-
(2014)
DASPOS Technical Report 2
, pp. 1-9
-
-
Haiyan, M.1
Matthias, W.2
Peter, I.3
-
23
-
-
82755174123
-
Reproducible research in computational science
-
22144613, 3383002
-
Peng RD: Reproducible research in computational science. Science. 2011;334(6060):1226-1227. 22144613 10.1126/science.1213847 3383002
-
(2011)
Science
, vol.334
, Issue.6060
, pp. 1226-1227
-
-
Peng, R.D.1
-
24
-
-
77956633623
-
An invitation to reproducible computational research
-
20538873
-
Donoho DL: An invitation to reproducible computational research. Biostatistics. 2010;11(3):385-388. 20538873 10.1093/biostatistics/kxq028
-
(2010)
Biostatistics
, vol.11
, Issue.3
, pp. 385-388
-
-
Donoho, D.L.1
-
25
-
-
84864234358
-
Reproducible research: Tools and strategies for scientific computing
-
Stodden V: Reproducible research: Tools and strategies for scientific computing. Comput Sci Eng. 2012;14(4):11-12. 10.1109/MCSE.2012.82
-
(2012)
Comput Sci Eng
, vol.14
, Issue.4
, pp. 11-12
-
-
Stodden, V.1
-
26
-
-
84914815012
-
Computational science: shifting the focus from tools to models
-
25309728, 4184301
-
Hinsen K: Computational science: shifting the focus from tools to models. F1000Res. 2014;3:101. 25309728 10.12688/f1000research.3978.2 4184301
-
(2014)
F1000Res
, vol.3
, pp. 101
-
-
Hinsen, K.1
-
27
-
-
84934278956
-
The approximation tower in computational science: Why testing scientific software is difficult
-
Hinsen K: The approximation tower in computational science: Why testing scientific software is difficult. Comput Sci Eng. 2015;17(4):72-77. 10.1109/MCSE.2015.75
-
(2015)
Comput Sci Eng
, vol.17
, Issue.4
, pp. 72-77
-
-
Hinsen, K.1
-
28
-
-
84973243690
-
Research Object Community
-
Reference Source
-
Research Object Community.2015. Reference Source
-
(2015)
-
-
-
29
-
-
84973272970
-
Wolfram Research, Inc. Mathematica 2.0
-
Wolfram Research, Inc. Mathematica 2.0.1991.
-
(1991)
-
-
-
30
-
-
84973247531
-
Project Jupyter
-
Reference Source
-
Project Jupyter. 2014. Reference Source
-
(2014)
-
-
-
31
-
-
0021425467
-
Literate programming
-
Reference Source
-
Knuth DE: Literate programming. The Computer Journal. 1984;27(2):97-111. Reference Source
-
(1984)
The Computer Journal
, vol.27
, Issue.2
, pp. 97-111
-
-
Knuth, D.E.1
-
32
-
-
79955561198
-
Active documents with Org-mode
-
Publisher Full Text, Free Full Text
-
Schulte E Davison D: Active documents with Org-mode. Comput Sci Eng. 2011;13(3):66-73. Publisher Full Text| Free Full Text
-
(2011)
Comput Sci Eng
, vol.13
, Issue.3
, pp. 66-73
-
-
Schulte, E.1
Davison, D.2
-
33
-
-
84884536575
-
Dynamic Documents with R and knitr
-
Reference Source, Chapman & Hall.
-
Xie Y: Dynamic Documents with R and knitr. Chapman & Hall.2013. Reference Source
-
(2013)
-
-
Xie, Y.1
-
34
-
-
84870451462
-
The Kepler Project
-
Reference Source
-
The Kepler Project. Reference Source
-
-
-
-
35
-
-
84870404232
-
The Taverna workflow management system
-
Reference Source
-
The Taverna workflow management system. Reference Source
-
-
-
-
36
-
-
84973234501
-
VisTrails
-
Reference Source
-
VisTrails. Reference Source
-
-
-
-
37
-
-
84973265370
-
Enhancing reproducibility and collaboration via management of R package cohorts
-
Reference Source
-
Gabriel B Cory B Robert G: Enhancing reproducibility and collaboration via management of R package cohorts. arXiv.org. 2015. Reference Source
-
(2015)
arXiv.org
-
-
Gabriel, B.1
Cory, B.2
Robert, G.3
-
38
-
-
84856227382
-
Supporting the internet-based evaluation of research software with cloud infrastructure
-
Van Gorp P Grefen P: Supporting the internet-based evaluation of research software with cloud infrastructure. Softw Syst Model. 2012;11(1):11-28. 10.1007/s10270-010-0163-y
-
(2012)
Softw Syst Model
, vol.11
, Issue.1
, pp. 11-28
-
-
Van Gorp, P.1
Grefen, P.2
-
39
-
-
84914814001
-
recomputation.org home page
-
Reference Source
-
Gent I Kotthoff L: recomputation.org home page. 2014. Reference Source
-
(2014)
-
-
Gent, I.1
Kotthoff, L.2
-
40
-
-
84930431121
-
An introduction to Docker for reproducible research, with examples from the R environment
-
arXiv.org, Reference Source
-
Boettiger C: An introduction to Docker for reproducible research, with examples from the R environment. arXiv.org. 2014. Reference Source
-
(2014)
-
-
Boettiger, C.1
-
41
-
-
84930635950
-
An invariant framework for conducting reproducible computational science
-
Meng H Kommineni R Pham Q: An invariant framework for conducting reproducible computational science. Journal of Computational Science. 2015;9:137-142. 10.1016/j.jocs.2015.04.012
-
(2015)
Journal of Computational Science
, vol.9
, pp. 137-142
-
-
Meng, H.1
Kommineni, R.2
Pham, Q.3
-
42
-
-
84973239780
-
exec&share
-
Reference Source
-
exec&share. 2014. Reference Source
-
(2014)
-
-
-
43
-
-
84973269385
-
Collage Authoring Environment
-
Reference Source
-
Collage Authoring Environment.2015. Reference Source
-
(2015)
-
-
-
44
-
-
0004220511
-
The Java Virtual Machine Specification
-
Reference Source, Prentice Hall.
-
Lindholm T Yellin F: The Java Virtual Machine Specification. Prentice Hall.1999. Reference Source
-
(1999)
-
-
Lindholm, T.1
Yellin, F.2
-
45
-
-
84973263172
-
ECMA Standard 335: Common Language Infrastructure CLI
-
Reference Source
-
ECMA Standard 335: Common Language Infrastructure CLI. Reference Source
-
-
-
-
46
-
-
84919354602
-
JAR file specification
-
Reference Source
-
JAR file specification. Reference Source
-
-
-
-
47
-
-
84856330868
-
The limits of reproducibility in numerical simulation
-
10.1109/MCSE.2011.21
-
Diethelm K: The limits of reproducibility in numerical simulation. Comput Sci Eng. 2012;14(1):64-72. 10.1109/MCSE.2011.21
-
(2012)
Comput Sci Eng
, vol.14
, Issue.1
, pp. 64-72
-
-
Diethelm, K.1
-
48
-
-
84861728837
-
The effects of FreeSurfer version, workstation type, and Macintosh operating system version on anatomical volume and cortical thickness measurements
-
22675527, 3365894
-
Gronenschild EHBM Habets P Jacobs HIL: The effects of FreeSurfer version, workstation type, and Macintosh operating system version on anatomical volume and cortical thickness measurements. PLoS One. 2012;7(6):e38234. 22675527 10.1371/journal.pone.0038234 3365894
-
(2012)
PLoS One
, vol.7
, Issue.6
, pp. e38234
-
-
Gronenschild, E.H.B.M.1
Habets, P.2
Jacobs, H.I.L.3
-
49
-
-
84928663156
-
Reproducibility of neuroimaging analyses across operating systems
-
25964757, 4408913
-
Glatard T Lewis LB Ferreira da Silva R: Reproducibility of neuroimaging analyses across operating systems. Front Neuroinform. 2015;9:12. 25964757 10.3389/fninf.2015.00012 4408913
-
(2015)
Front Neuroinform
, vol.9
, pp. 12
-
-
Glatard, T.1
Lewis, L.B.2
Ferreira da Silva, R.3
-
51
-
-
84881233879
-
Fast reproducible floating-point summation
-
21st IEEE Symposium on Computer Arithmetic
-
Demmel J Nguyen HD: Fast reproducible floating-point summation. In 21st IEEE Symposium on Computer Arithmetic, Austin, Texas, USA.2013;163-172. 10.1109/ARITH.2013.9
-
(2013)
, pp. 163-172
-
-
Demmel, J.1
Nguyen, H.D.2
-
52
-
-
84904610736
-
Numerical reproducibility and parallel computations: Issues for interval algorithms
-
Revol N Theveny P: Numerical reproducibility and parallel computations: Issues for interval algorithms. IEEE Trans Comput. 2014;63(8):1-1. 10.1109/TC. 2014.2322593
-
(2014)
IEEE Trans Comput
, vol.63
, Issue.8
, pp. 1-1
-
-
Revol, N.1
Theveny, P.2
-
53
-
-
84973262345
-
Portable Native client: The "pinnacle"? of speed, security, and portability
-
Reference Source
-
Portable Native client: The "pinnacle"? of speed, security, and portability. 2014. Reference Source
-
(2014)
-
-
-
54
-
-
3042658703
-
LLVM: A compilation framework for lifelong program analysis and transformation
-
Proceedings of the 2004 International Symposium on Code Generation and Optimization, Reference Source, In
-
Lattner C Adve V: LLVM: A compilation framework for lifelong program analysis and transformation. In Proceedings of the 2004 International Symposium on Code Generation and Optimization, San Jose, CA, USA,2004;75-88. Reference Source
-
(2004)
, pp. 75-88
-
-
Lattner, C.1
Adve, V.2
-
55
-
-
79958260504
-
A data and code model for reproducible research and executable papers
-
Hinsen K: A data and code model for reproducible research and executable papers. Pro Comput Sci. 2011;4:579-588. 10.1016/j.procs.2011.04.061
-
(2011)
Pro Comput Sci
, vol.4
, pp. 579-588
-
-
Hinsen, K.1
-
56
-
-
84870561903
-
Hierarchical data format version 5
-
The HDF Group, Reference Source
-
The HDF Group. Hierarchical data format version 5. Reference Source
-
-
-
-
57
-
-
84973247927
-
Scientific IT Services of ETH Zürich. JHDF5, HDF5 for Java
-
Reference Source
-
Scientific IT Services of ETH Zürich. JHDF5, HDF5 for Java. Reference Source
-
-
-
-
58
-
-
84973252057
-
Make (software)
-
Reference Source
-
Wikipedia. Make (software)- Wikipedia, the free encyclopedia. 2014. Reference Source
-
(2014)
-
-
-
59
-
-
79952591087
-
Python for scientists and engineers
-
Millman KJ Aivazis M: Python for scientists and engineers. Comput Sci Eng. 2011;13(2):9-12. 10.1109/MCSE.2011.36
-
(2011)
Comput Sci Eng
, vol.13
, Issue.2
, pp. 9-12
-
-
Millman, K.J.1
Aivazis, M.2
-
60
-
-
84873042511
-
Python Software Foundation
-
Reference Source
-
Python Software Foundation. The Python language. 2014. Reference Source
-
(2014)
-
-
-
61
-
-
84922646316
-
Python and HDF5
-
Reference Source, O'Reilly Media.
-
Collette A: Python and HDF5. O'Reilly Media.2013. Reference Source
-
(2013)
-
-
Collette, A.1
-
62
-
-
84973230698
-
NumPy development team. NumPy
-
Reference Source
-
NumPy development team. NumPy. 2014. Reference Source
-
(2014)
-
-
-
63
-
-
84885449105
-
A comparison of reduced coordinate sets for describing protein structure
-
24089758
-
Hinsen K Hu S Kneller GR: A comparison of reduced coordinate sets for describing protein structure. J Chem Phys. 2013;139(12):124115. 24089758 10.1063/1.4821598
-
(2013)
J Chem Phys
, vol.139
, Issue.12
, pp. 124115
-
-
Hinsen, K.1
Hu, S.2
Kneller, G.R.3
-
64
-
-
84886557186
-
Model-free simulation approach to molecular diffusion tensors
-
24160503
-
Chevrot G Hinsen K Kneller GR: Model-free simulation approach to molecular diffusion tensors. J Chem Phys. 2013;139(15):154110. 24160503 10.1063/1.4823996
-
(2013)
J Chem Phys
, vol.139
, Issue.15
, pp. 154110
-
-
Chevrot, G.1
Hinsen, K.2
Kneller, G.R.3
-
65
-
-
84893348203
-
MOSAIC: a data model and file formats for molecular simulations
-
24359023
-
Hinsen K: MOSAIC: a data model and file formats for molecular simulations. J Chem Inf Model. 2014;54(1):131-137. 24359023 10.1021/ci400599y
-
(2014)
J Chem Inf Model
, vol.54
, Issue.1
, pp. 131-137
-
-
Hinsen, K.1
-
66
-
-
84973242836
-
ImmutablePy 0.1 in ActivePapers format
-
Reference Source
-
Hinsen K: ImmutablePy 0.1 in ActivePapers format. figshare. 2013. Reference Source
-
(2013)
figshare
-
-
Hinsen, K.1
-
67
-
-
84973257362
-
pyMosaic 0.3.1
-
Reference Source
-
Hinsen K: pyMosaic 0.3.1. Zenodo. 2014. Reference Source
-
(2014)
Zenodo
-
-
Hinsen, K.1
-
68
-
-
84973262218
-
ASTRAL-SCOPe subset 2.04 in ActivePapers format
-
Reference Source
-
Hinsen K: ASTRAL-SCOPe subset 2.04 in ActivePapers format. Zenodo. 2014. Reference Source
-
(2014)
Zenodo
-
-
Hinsen, K.1
-
69
-
-
84973245546
-
A comparison of reduced coordinate sets for describing protein structure
-
Reference Source
-
Hinsen K Shuangwei Hu Kneller GR: A comparison of reduced coordinate sets for describing protein structure. figshare. 2013. Reference Source
-
(2013)
figshare
-
-
Hinsen, K.1
Shuangwei, H.2
Kneller, G.R.3
-
70
-
-
84973225709
-
Model-free simulation approach to molecular diffusion tensors: Water
-
Reference Source
-
Chevrot G Hinsen K Kneller GR: Model-free simulation approach to molecular diffusion tensors: Water. figshare. 2013. Reference Source
-
(2013)
figshare
-
-
Chevrot, G.1
Hinsen, K.2
Kneller, G.R.3
-
71
-
-
84973225709
-
Model-free simulation approach to molecular diffusion tensors: Lysozyme
-
Reference Source
-
Chevrot G Hinsen K Kneller GR: Model-free simulation approach to molecular diffusion tensors: Lysozyme. figshare. 2013. Reference Source
-
(2013)
figshare
-
-
Chevrot, G.1
Hinsen, K.2
Kneller, G.R.3
-
72
-
-
84973272101
-
pyMosaic 0.1.1 in ActivePapers format
-
Reference Source
-
Hinsen K: pyMosaic 0.1.1 in ActivePapers format. figshare. 2013. Reference Source
-
(2013)
figshare
-
-
Hinsen, K.1
-
73
-
-
84973253341
-
pyMosaic 0.2.0
-
Reference Source
-
Hinsen K: pyMosaic 0.2.0. Zenodo. 2014. Reference Source
-
(2014)
Zenodo
-
-
Hinsen, K.1
-
74
-
-
84973248934
-
pyMosaic 0.3.0
-
Reference Source
-
Hinsen K: pyMosaic 0.3.0. Zenodo. 2014. Reference Source
-
(2014)
Zenodo
-
-
Hinsen, K.1
-
75
-
-
84973246206
-
Nested VM - binary translation for Java
-
Reference Source
-
Nested VM - binary translation for Java.2015. Reference Source
-
(2015)
-
-
-
76
-
-
84973228321
-
Summary of the first Workshop on Sustainable Software for Science: Practice and experiences (WSSSPE1)
-
Katz DS Choi ST Lapp H: Summary of the first Workshop on Sustainable Software for Science: Practice and experiences (WSSSPE1). J Open Research Software. 2014;2:e6. 10.5334/jors.an
-
(2014)
J Open Research Software
, vol.2
, pp. e6
-
-
Katz, D.S.1
Choi, S.T.2
Lapp, H.3
|