Search Results for "cite"
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Showing 28 open source projects for "cite"
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BQSKit
Berkeley Quantum Synthesis Toolkit
The Berkeley Quantum Synthesis Toolkit (BQSKit) [bis • kit] is a powerful and portable quantum compiler framework. It can be used with ease to compile quantum programs to efficient physical circuits for any QPU. A standard workflow utilizing BQSKit consists of loading a program into the framework, modeling the target QPU, compiling the program, and exporting the resulting circuit. -
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adstex
Automated generation of NASA ADS bibtex entries directly from citation
adstex automatically identifies all citation keys (e.g., identifiers, author+year) in your TeX source files and uses NASA's Astrophysics Data System (ADS) to generate corresponding bibtex entries. Write your papers without worrying about the bibtex entries. Simply put down arXiv IDs, ADS bibcodes, DOIs, or first author & year citation keys in your \cite commands, and then use adstex to automatically generate the bibtex file for you. -
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Rebiber
A simple tool to update bib entries with their official information
We often cite papers using their arXiv versions without noting that they are already PUBLISHED in some conferences. These unofficial bib entries might violate rules about submissions or camera-ready versions for some conferences. We introduce Rebiber, a simple tool in Python to fix them automatically. It is based on the official conference information from the DBLP or the ACL anthology (for NLP conferences)! -
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...This project was inspired on the Radiomics, and provides a GUI with convenient process. FAE was initially developed by East China Normal University and Siemens Healthineers Ltd. If FAE could help in your project, We appreciate that you could cite this work: FeAture Explorer (FAE): A tool for developing and comparing radiomics models. PLoS One. 2020. DOI: https://doi.org/10.1371/journal.pone.0237587 * The released Windows64 version depends on VC_redist.x64 and OpenSSL * The Video: https://www.bilibili.com/video/BV1J14y1i73p Since the limited by the filesize, the new release could be found in https://pan.baidu.com/s/1xI0ArW_V-_36uIqxIuaNfA?...
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SecurePose
Automated Face Blurring, Kinematics Extraction and Leg dystonia Dx
...For installation, https://www.rishabh-bajpai.com/secureposeinstallation Tutorial Videos https://www.youtube.com/playlist?list=PLO4_jCYO5Ib23MoBpn-Wpj1_b6DAYlDwk Please cite the paper: https://arxiv.org/abs/2402.14143 -
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Alphafold
Open source code for AlphaFold
...For simplicity, we refer to this model as AlphaFold throughout the rest of this document. Any publication that discloses findings arising from using this source code or the model parameters should cite the AlphaFold paper. Please also refer to the Supplementary Information for a detailed description of the method. You can use a slightly simplified version of AlphaFold with this Colab notebook or community-supported versions. The total download size for the full databases is around 415 GB and the total size when unzipped is 2.2 TB. ... -
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HistogramsApp
Application that generates KDE-PDP plots from geochronological data
HistogramsApp is a Python 3.6 application that generates (KDE and PDP) from geochronological data .HistogramsApp allows to interactively setup plot parameters such as the bandwidth and the peak detection sensibility. To cite the application please refer to: 1) https://www.tandfonline.com/doi/abs/10.1080/00206814.2021.1954556?journalCode=tigr20 Rodriguez-Corcho, A. F., Rojas-Agramonte, Y., Barrera-Gonzalez, J. A., Marroquin-Gomez, M. P., Bonilla-Correa, S., Izquierdo-Camacho, D., ... & Montes, C. (2021). The Colombian geochronological database (CGD). ... -
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U-Net Fusion RFI
U-Net for RFI Detection based on @jakeret's implementation
...You can find this code at https://gitlab.com/aroffringa/aoflagger. This project will use the aoflagger program within the code, so you may need to ensure that any environment variables are set for aoflagger before use. cite: https://sourceforge.net/p/u-net-fusion-rfi/wiki/cite/ -
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DeepImageTranslator
DeepImageTranslator: a deep-learning utility for image translation
Created by: Run Zhou Ye, En Zhou Ye, and En Hui Ye DeepImageTranslator: a free, user-friendly tool for image translation using deep-learning and its applications in CT image analysis Citation: Please cite this software as: Ye RZ, Noll C, Richard G, Lepage M, Turcotte ÉE, Carpentier AC. DeepImageTranslator: a free, user-friendly graphical interface for image translation using deep-learning and its applications in 3D CT image analysis. SLAS technology. 2022 Feb 1;27(1):76-84. https://doi.org/10.1016/j.slast.2021.10.014 -
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RELEASE NOTE: Get raxmlGUI 2.0 at the NEW PROJECT LOCATION: https://antonellilab.github.io/raxmlGUI/ raxmlGUI is a graphical user interface to RAxML, one of the most popular and widely used software for phylogenetic inference using maximum likelihood. A userfriendly graphical front-end for phylogenetic analyses using RAxML (Stamatakis, 2006). Please cite: Silvestro, Michalak (2012) - raxmlGUI: a graphical front-end for RAxML. Organisms Diversity and Evolution 12, 335-337. DOI: 10.1007/s13127-011-0056-0
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VividSTORM
Correlated confocal and SMLM data visualization and analysis
...NOTE: If you encounter issues not addressed by the user guide, please contact by message on this site or via e-mail for additional support: vividstorm[at]koki.mta.hu If you find our software useful in your project, please cite: Correlated confocal and super-resolution imaging by VividSTORM Nature Protocols 11, 163–183 (2016) doi:10.1038/nprot.2016.002 -
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CIF2Cell
Generating cells for electronic structure calculations from CIF files
...The program currently supports output for a number of popular electronic structure programs, including ABINIT, ASE, CASTEP, CP2K, CPMD, CRYSTAL09, Elk, EMTO, Exciting, Fleur, FHI-aims, Hutsepot, MOPAC, Quantum Espresso, RSPt, Siesta, SPR-KKR, VASP. Also exports some related formats like .coo, .cfg and .xyz-files. The program has been published in Computer Physics Communications 182 (2011) 1183–1186. Please cite generously. -
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darc
Durham Adaptive-optics Real-time Controller
...For the latest bleeding-edge version, please use: git clone git://git.code.sf.net/p/darc2/code darc (no password required) (this changed May 2013 due to a sourceforge update). If you use darc, please cite with: Basden, A and Myers, R, MNRAS Vol 242, page 1483, 2012 -
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CorNetMap
A tool for Gene Expression Correlation Network
...How to use and doccumentation: https://sourceforge.net/projects/cornetmap/files/Documentation_corNetMap.pdf Sample data for testing: https://sourceforge.net/projects/cornetmap/files/Test%20Data/ Citation: Cite CornetMap as " Khaund, A. Bose, B. CorNetMap. https://sourceforge.net/projects/cornetmap " Credit: Abhigyan Khaund, Biplab Bose, IIT Guwahati -
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orbkit (Moved to Github)
A Modular Python Toolbox for Cross-Platform Post-Processing of Quantum
PLEASE NOTE ORBKIT HAS BEEN MOVED TO https://github.com/orbkit/orbkit orbkit is a parallel Python program package for post-processing wave function data extracted from output files of MOLPRO (Molden File Format), TURBOMOLE (AOMix file format), GAMESS-US, PROAIMS/AIMPAC (wfn/wfx file format), and Gaussian (Output File and Formatted Checkpoint File) output files. Futhermore, an interface to cclib, a parser for quantum chemical logfiles, is provided. If you use orbkit in your work, please cite it as follows: Gunter Hermann, Vincent Pohl, Jean Christophe Tremblay, Beate Paulus, Hans-Christian Hege, and Axel Schild, "ORBKIT: A Modular Python Toolbox for Cross-Platform Postprocessing of Quantum Chemical Wavefunction Data", J. Comput. Chem. 2016, DOI: 10.1002/jcc.24358. orbkit's documentation can be found at http://orbkit.github.io/ -
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Scaffold_Builder
Combining de novo and reference-guided assembly with Scaffold_builder
...Scaffold_builder can help in the assembly and annotation of genomes by revealing what is missing and allowing targeted sequencing to close those gaps. (c) Silva GG, Dutilh BE, Matthews TD, Elkins K, Schmieder R, Dinsdale EA, Edwards RA. Please cite: "Combining de novo and reference-guided assembly with Scaffold_builder", Source Code for Biology and Medicine 2013. -
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...By identifying polymorphic makers, rather than simple repeat regions as previous programs have done, iMSAT greatly increases the speed at which polymorphic MSATs that can be identified -- saving researchers precious time and money. Visit http://www.biomedcentral.com/1471-2164/15/858/abstract for the pdf article describing the utility of iMSAT and if you use the program please cite this article as: Andersen and Mills: iMSAT: a novel approach to the development of microsatellite loci using barcoded Illumina libraries. BMC Genomics 2014 15:858.
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RAMBO-K
Read Assignment Method Based On K-mers
RAMBO-K is a tool for rapid and sensitive removal of background sequences from Next Generation Sequencing data. Please cite our publication (http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0137896) if you use RAMBO-K. We moved to GitLab, please visit our homepage for latest development. The latest stable versions of RAMBO-K will still be provided here. -
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Phobos Application
Software for recording rodents' behavior during behavioral tests
...Phobos provides the possibility to easily calculate all possible experimental parameters at once immediately after the evaluation of the fear/anxiety level of each animal. All extracted files can be readily combined to one in order for statistical analyses to be performed. If you use Phobos for your research, please cite: Telonis AG, Margarity M.Phobos: a novel software for recording rodents' behavior during the thigmotaxis and the elevated plus-maze test. Neurosci Lett (2015) doi: 10.1016/j.neulet.2015.05.045 Paper link: http://www.sciencedirect.com/science/article/pii/S0304394015004103 For support, questions or feedback: atelonis@users.sourceforge.net -
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...ADOMA uses ClustalW to create the multiple alignment from DNA or protein sequences and displays them slightly different than the normal output of ClustalW. ADOMA is a commandline program that can easily be used in pipelines. For more information check the README.md in the Files section. How to cite ADOMA: Zaal, D. and Nota, B. (2016), ADOMA: A Command Line Tool to Modify ClustalW Multiple Alignment Output. Mol. Inf., 35: 42–44. doi: 10.1002/minf.201500083 http://onlinelibrary.wiley.com/doi/10.1002/minf.201500083/abstract
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CCH
A genetics tool that identifies genomic regions of shared ancestry
...CCH is robust to the presence of phenocopies and can detect undisclosed shared common ancestry. The associated publication regarding CCH may be accessed here: http://www.biomedcentral.com/1471-2164/16/163 If you use CCH please cite: Levine AP, Connor TM, Oygar DD, Neild GH, Segal AW, Maxwell PH, Gale DP. Combinatorial Conflicting Homozygosity (CCH) analysis enables the rapid identification of shared genomic regions in the presence of multiple phenocopies. BMC Genomics. 2015 Dec;16(1):1360. doi: 10.1186/s12864-015-1360-4. Epub 2015 Mar 10. -
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LWPR
Locally Weighted Projection Regression (LWPR)
...At its core, it uses locally linear models, spanned by a small number of univariate regressions in selected directions in input space. A locally weighted variant of Partial Least Squares (PLS) is employed for doing the dimensionality reduction. Please cite: [1] Sethu Vijayakumar, Aaron D'Souza and Stefan Schaal, Incremental Online Learning in High Dimensions, Neural Computation, vol. 17, no. 12, pp. 2602-2634 (2005). [2] Stefan Klanke, Sethu Vijayakumar and Stefan Schaal, A Library for Locally Weighted Projection Regression, Journal of Machine Learning Research (JMLR), vol. 9, pp. 623--626 (2008). ... -
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feinerleiser
Feinerleiser implements cite rules from the humanities for jabref
...Contrary to the style of citation used in engineering, psychology or medicine [Doe 1985; 123] the user can create complex citation-styles, that satisfy the needs and expectations of researchers from the field of humanities. Features Include Ibidem-Cite, full citation on first cite and others. It also supports sorting and selective printing of bibliographies. It is written in python3.x. As of external libraries only lxml is required. It has been tested on Linux/Debian, WindowsXP and Windows7, Mac should work too, though. -
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Clinical Evidence Detector
Detector of clinical evidence
This is a Python program based on the NegEx algorithm that detects the polarity of the clinical evidence in clinical random trials. If you use this code please cite this paper: P. Davis-Desmond and Diego Mollá. Detection of Evidence in Clinical Research Papers (2012). Australasian Workshop On Health Informatics and Knowledge Management (HIKM 2012), Melbourne, Australia. http://www.ics.mq.edu.au/~diego/publications/hikm12.pdf -
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Web app for exploring scholarly resources available as CITE resources (http://chs75.harvard.edu/projects/diginc/techpub/cite).