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| %% This BibTeX bibliography file was created using BibDesk. | ||
| %% https://bibdesk.sourceforge.io/ | ||
| %% Created for Thomas Bury at 2022-12-14 12:22:07 -0500 | ||
| %% Saved with string encoding Unicode (UTF-8) | ||
| @article{scheffer2009early, | ||
| title={Early-warning signals for critical transitions}, | ||
| author={Scheffer, Marten and Bascompte, Jordi and Brock, William A and Brovkin, Victor and Carpenter, Stephen R and Dakos, Vasilis and Held, Hermann and Van Nes, Egbert H and Rietkerk, Max and Sugihara, George}, | ||
| journal={Nature}, | ||
| volume={461}, | ||
| number={7260}, | ||
| pages={53--59}, | ||
| year={2009}, | ||
| publisher={Nature Publishing Group} | ||
| } | ||
| author = {Scheffer, Marten and Bascompte, Jordi and Brock, William A and Brovkin, Victor and Carpenter, Stephen R and Dakos, Vasilis and Held, Hermann and Van Nes, Egbert H and Rietkerk, Max and Sugihara, George}, | ||
| journal = {Nature}, | ||
| number = {7260}, | ||
| pages = {53--59}, | ||
| publisher = {Nature Publishing Group}, | ||
| title = {Early-warning signals for critical transitions}, | ||
| volume = {461}, | ||
| year = {2009}, | ||
| doi = {10.1038/nature08227}} | ||
|
|
||
| @article{clements2018indicators, | ||
| title={Indicators of transitions in biological systems}, | ||
| author={Clements, Christopher F and Ozgul, Arpat}, | ||
| journal={Ecology letters}, | ||
| volume={21}, | ||
| number={6}, | ||
| pages={905--919}, | ||
| year={2018}, | ||
| publisher={Wiley Online Library} | ||
| } | ||
| author = {Clements, Christopher F and Ozgul, Arpat}, | ||
| journal = {Ecology letters}, | ||
| number = {6}, | ||
| pages = {905--919}, | ||
| publisher = {Wiley Online Library}, | ||
| title = {Indicators of transitions in biological systems}, | ||
| volume = {21}, | ||
| year = {2018}, | ||
| doi = {10.1111/ele.12948}} | ||
|
|
||
| @article{bury2020detecting, | ||
| title={Detecting and distinguishing tipping points using spectral early warning signals}, | ||
| author={Bury, Thomas M and Bauch, Chris T and Anand, Madhur}, | ||
| journal={Journal of the Royal Society Interface}, | ||
| volume={17}, | ||
| number={170}, | ||
| pages={20200482}, | ||
| year={2020}, | ||
| publisher={The Royal Society} | ||
| } | ||
| author = {Bury, Thomas M and Bauch, Chris T and Anand, Madhur}, | ||
| journal = {Journal of the Royal Society Interface}, | ||
| number = {170}, | ||
| pages = {20200482}, | ||
| publisher = {The Royal Society}, | ||
| title = {Detecting and distinguishing tipping points using spectral early warning signals}, | ||
| volume = {17}, | ||
| year = {2020}, | ||
| doi = {10.1098/rsif.2020.0482}} | ||
|
|
||
| @article{bury2021deep, | ||
| title={Deep learning for early warning signals of tipping points}, | ||
| author={Bury, Thomas M and Sujith, RI and Pavithran, Induja and Scheffer, Marten and Lenton, Timothy M and Anand, Madhur and Bauch, Chris T}, | ||
| journal={Proceedings of the National Academy of Sciences}, | ||
| volume={118}, | ||
| number={39}, | ||
| pages={e2106140118}, | ||
| year={2021}, | ||
| publisher={National Acad Sciences} | ||
| } | ||
| author = {Bury, Thomas M and Sujith, RI and Pavithran, Induja and Scheffer, Marten and Lenton, Timothy M and Anand, Madhur and Bauch, Chris T}, | ||
| journal = {Proceedings of the National Academy of Sciences}, | ||
| number = {39}, | ||
| pages = {e2106140118}, | ||
| publisher = {National Acad Sciences}, | ||
| title = {Deep learning for early warning signals of tipping points}, | ||
| volume = {118}, | ||
| year = {2021}, | ||
| doi = {10.1073/pnas.2106140118}} | ||
|
|
||
| @article{dakos2012methods, | ||
| title={Methods for detecting early warnings of critical transitions in time series illustrated using simulated ecological data}, | ||
| author={Dakos, Vasilis and Carpenter, Stephen R and Brock, William A and Ellison, Aaron M and Guttal, Vishwesha and Ives, Anthony R and K{\'e}fi, Sonia and Livina, Valerie and Seekell, David A and van Nes, Egbert H and others}, | ||
| journal={PloS one}, | ||
| volume={7}, | ||
| number={7}, | ||
| pages={e41010}, | ||
| year={2012}, | ||
| publisher={Public Library of Science San Francisco, USA} | ||
| } | ||
| author = {Dakos, Vasilis and Carpenter, Stephen R and Brock, William A and Ellison, Aaron M and Guttal, Vishwesha and Ives, Anthony R and K{\'e}fi, Sonia and Livina, Valerie and Seekell, David A and van Nes, Egbert H and others}, | ||
| journal = {PloS one}, | ||
| number = {7}, | ||
| pages = {e41010}, | ||
| publisher = {Public Library of Science San Francisco, USA}, | ||
| title = {Methods for detecting early warnings of critical transitions in time series illustrated using simulated ecological data}, | ||
| volume = {7}, | ||
| year = {2012}, | ||
| doi = {10.1371/journal.pone.0041010}} | ||
|
|
||
| @article{genin2018monitoring, | ||
| title={Monitoring ecosystem degradation using spatial data and the {R} package spatialwarnings}, | ||
| author={G{\'e}nin, Alexandre and Majumder, Sabiha and Sankaran, Sumithra and Danet, Alain and Guttal, Vishwesha and Schneider, Florian D and K{\'e}fi, Sonia}, | ||
| journal={Methods in Ecology and Evolution}, | ||
| volume={9}, | ||
| number={10}, | ||
| pages={2067--2075}, | ||
| year={2018}, | ||
| publisher={Wiley Online Library} | ||
| } | ||
|
|
||
| author = {G{\'e}nin, Alexandre and Majumder, Sabiha and Sankaran, Sumithra and Danet, Alain and Guttal, Vishwesha and Schneider, Florian D and K{\'e}fi, Sonia}, | ||
| journal = {Methods in Ecology and Evolution}, | ||
| number = {10}, | ||
| pages = {2067--2075}, | ||
| publisher = {Wiley Online Library}, | ||
| title = {Monitoring ecosystem degradation using spatial data and the {R} package spatialwarnings}, | ||
| volume = {9}, | ||
| year = {2018}, | ||
| doi = {10.1111/2041-210X.13058}} | ||
|
|
||
| @article{harris2020array, | ||
| title={Array programming with {N}um{P}y}, | ||
| author={Harris, Charles R and Millman, K Jarrod and Van Der Walt, St{\'e}fan J and Gommers, Ralf and Virtanen, Pauli and Cournapeau, David and Wieser, Eric and Taylor, Julian and Berg, Sebastian and Smith, Nathaniel J and others}, | ||
| journal={Nature}, | ||
| volume={585}, | ||
| number={7825}, | ||
| pages={357--362}, | ||
| year={2020}, | ||
| publisher={Nature Publishing Group} | ||
| } | ||
| author = {Harris, Charles R and Millman, K Jarrod and Van Der Walt, St{\'e}fan J and Gommers, Ralf and Virtanen, Pauli and Cournapeau, David and Wieser, Eric and Taylor, Julian and Berg, Sebastian and Smith, Nathaniel J and others}, | ||
| journal = {Nature}, | ||
| number = {7825}, | ||
| pages = {357--362}, | ||
| publisher = {Nature Publishing Group}, | ||
| title = {Array programming with {N}um{P}y}, | ||
| volume = {585}, | ||
| year = {2020}, | ||
| doi = {10.1038/s41586-020-2649-2}} | ||
|
|
||
| @article{newville2016lmfit, | ||
| title={LMFIT: Non-linear least-square minimization and curve-fitting for {P}ython}, | ||
| author={Newville, Matthew and Stensitzki, Till and Allen, Daniel B and Rawlik, Michal and Ingargiola, Antonino and Nelson, Andrew}, | ||
| journal={Astrophysics Source Code Library}, | ||
| pages={ascl--1606}, | ||
| year={2016} | ||
| } | ||
| author = {Newville, Matthew and Stensitzki, Till and Allen, Daniel B and Rawlik, Michal and Ingargiola, Antonino and Nelson, Andrew}, | ||
| journal = {Astrophysics Source Code Library}, | ||
| pages = {ascl--1606}, | ||
| title = {LMFIT: Non-linear least-square minimization and curve-fitting for {P}ython}, | ||
| year = {2016}} | ||
|
|
||
| @inproceedings{mckinney2010data, | ||
| title={Data structures for statistical computing in {P}ython}, | ||
| author={McKinney, Wes and others}, | ||
| booktitle={Proceedings of the 9th Python in Science Conference}, | ||
| volume={445}, | ||
| number={1}, | ||
| pages={51--56}, | ||
| year={2010}, | ||
| organization={Austin, TX} | ||
| } | ||
|
|
||
| @online{plotly, | ||
| author = {{Plotly Technologies Inc.}}, | ||
| title = {Collaborative data science}, | ||
| publisher = {Plotly Technologies Inc.}, | ||
| address = {Montreal, QC}, | ||
| year = {2015}, | ||
| url = {https://plotly.com} } | ||
| author = {McKinney, Wes and others}, | ||
| booktitle = {Proceedings of the 9th Python in Science Conference}, | ||
| number = {1}, | ||
| organization = {Austin, TX}, | ||
| pages = {51--56}, | ||
| title = {Data structures for statistical computing in {P}ython}, | ||
| volume = {445}, | ||
| year = {2010}, | ||
| doi = {10.25080/Majora-92bf1922-00a}} | ||
|
|
||
| @online{plotly, | ||
| address = {Montreal, QC}, | ||
| author = {{Plotly Technologies Inc.}}, | ||
| publisher = {Plotly Technologies Inc.}, | ||
| title = {Collaborative data science}, | ||
| url = {https://plotly.com}, | ||
| year = {2015}, | ||
| bdsk-url-1 = {https://plotly.com}} | ||
|
|
||
| @software{sheppard_2015_15681, | ||
| author = {Sheppard, Kevin}, | ||
| title = {ARCH Toolbox for {P}ython}, | ||
| month = feb, | ||
| year = 2015, | ||
| note = {{GitHub repository: | ||
| https://github.com/bashtage/arch}}, | ||
| publisher = {Zenodo}, | ||
| doi = {10.5281/zenodo.15681}, | ||
| url = {https://doi.org/10.5281/zenodo.15681} | ||
| } | ||
|
|
||
| author = {Sheppard, Kevin}, | ||
| doi = {10.5281/zenodo.15681}, | ||
| month = feb, | ||
| note = {{GitHub repository: https://github.com/bashtage/arch}}, | ||
| publisher = {Zenodo}, | ||
| title = {ARCH Toolbox for {P}ython}, | ||
| url = {https://doi.org/10.5281/zenodo.15681}, | ||
| year = 2015, | ||
| bdsk-url-1 = {https://doi.org/10.5281/zenodo.15681}} | ||
|
|
||
| @inproceedings{seabold2010statsmodels, | ||
| title={statsmodels: Econometric and statistical modeling with {P}ython}, | ||
| author={Seabold, Skipper and Perktold, Josef}, | ||
| booktitle={9th Python in Science Conference}, | ||
| year={2010}, | ||
| } | ||
|
|
||
| author = {Seabold, Skipper and Perktold, Josef}, | ||
| booktitle = {9th Python in Science Conference}, | ||
| title = {statsmodels: Econometric and statistical modeling with {P}ython}, | ||
| year = {2010}, | ||
| doi = {10.25080/Majora-92bf1922-011}} | ||
|
|
||
| @article{virtanen2020scipy, | ||
| title={SciPy 1.0: fundamental algorithms for scientific computing in {P}ython}, | ||
| author={Virtanen, Pauli and Gommers, Ralf and Oliphant, Travis E and Haberland, Matt and Reddy, Tyler and Cournapeau, David and Burovski, Evgeni and Peterson, Pearu and Weckesser, Warren and Bright, Jonathan and others}, | ||
| journal={Nature methods}, | ||
| volume={17}, | ||
| number={3}, | ||
| pages={261--272}, | ||
| year={2020}, | ||
| publisher={Nature Publishing Group} | ||
| } | ||
|
|
||
| author = {Virtanen, Pauli and Gommers, Ralf and Oliphant, Travis E and Haberland, Matt and Reddy, Tyler and Cournapeau, David and Burovski, Evgeni and Peterson, Pearu and Weckesser, Warren and Bright, Jonathan and others}, | ||
| journal = {Nature methods}, | ||
| number = {3}, | ||
| pages = {261--272}, | ||
| publisher = {Nature Publishing Group}, | ||
| title = {SciPy 1.0: fundamental algorithms for scientific computing in {P}ython}, | ||
| volume = {17}, | ||
| year = {2020}, | ||
| doi = {10.1038/s41592-020-0772-5}} | ||
|
|
||
| @inproceedings{abadi2016tensorflow, | ||
| title={Tensorflow: A system for large-scale machine learning}, | ||
| author={Abadi, Mart{\'\i}n and Barham, Paul and Chen, Jianmin and Chen, Zhifeng and Davis, Andy and Dean, Jeffrey and Devin, Matthieu and Ghemawat, Sanjay and Irving, Geoffrey and Isard, Michael and others}, | ||
| booktitle={12th USENIX symposium on operating systems design and implementation (OSDI 16)}, | ||
| pages={265--283}, | ||
| year={2016} | ||
| } | ||
|
|
||
| author = {Abadi, Mart{\'\i}n and Barham, Paul and Chen, Jianmin and Chen, Zhifeng and Davis, Andy and Dean, Jeffrey and Devin, Matthieu and Ghemawat, Sanjay and Irving, Geoffrey and Isard, Michael and others}, | ||
| booktitle = {12th USENIX symposium on operating systems design and implementation (OSDI 16)}, | ||
| pages = {265--283}, | ||
| title = {Tensorflow: A system for large-scale machine learning}, | ||
| year = {2016}, | ||
| doi = {10.48550/arXiv.1605.08695}} | ||
|
|
||
| @misc{chollet2015keras, | ||
| title={Keras}, | ||
| author={Chollet, Fran\c{c}ois and others}, | ||
| year={2015}, | ||
| howpublished={\url{https://keras.io}}, | ||
| } | ||
|
|
||
|
|
||
| @online{pypl, | ||
| author = {PYPL}, | ||
| title = {Popularity of Programming Language Index}, | ||
| year = {2022}, | ||
| url ={https://pypl.github.io/PYPL.html}, | ||
| } | ||
|
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||
|
|
||
| author = {Chollet, Fran\c{c}ois and others}, | ||
| howpublished = {\url{https://keras.io}}, | ||
| title = {Keras}, | ||
| year = {2015}} | ||
|
|
||
| @online{pypl, | ||
| author = {PYPL}, | ||
| title = {Popularity of Programming Language Index}, | ||
| url = {https://pypl.github.io/PYPL.html}, | ||
| year = {2022}, | ||
| bdsk-url-1 = {https://pypl.github.io/PYPL.html}} |