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4,764 results for “file”
HCP-YA Tractography Atlas (NIFTI Files)
<p>Yeh, F. C., Panesar, S., Fernandes, D., Meola, A., Yoshino, M., Fernandez-Miranda, J. C., ... & Verstynen, T. (2018). Population-averaged atlas of the macroscale human structural connectome and its network topology. NeuroImage, 178, 57-68.</p>
Project files provided as supporting information to the manuscript "Ligand-protein interactions in lysozyme investigated through a dual-resolution model"
<p><strong>README file for the project files provided as supporting information to the manuscript "Ligand-protein interactions in lysozyme investigated through a dual-resolution model"</strong></p> <p>February 12, 2020</p> <p>Authors: Raffaele Fiorentini, Kurt Kremer and Raffaello Potestio</p> <p>================================</p> <p>Overview</p> <p>The dataset is organised in three (compressed) subfolders (see the tree diagrams in each section):</p> <p>- annihilation<br> - decoupling<br> - density</p> <p>The figure deltaG_binding_ann_dec_comparison.png shows the results of binding free energy calculations comparing the values obtained both for annihilation and decoupling.</p> <p>The figure deltaG_binding_annih_gromacs_espp.png displays the results for Binding FE, comparing the values obtained in GROMACS and ESPResSo++.</p> <p>The README.pdf file contains detailed information about these folders and their content.</p> <p>================================</p> <p>The "annihilation" folder contains all results concerning the calculation of binding free energy in case of annihilation and it is divided in two parts: </p> <p>- complex<br> - ligand</p> <p>In "complex" are reported the results of Ligand-Protein FE both in ESPResSo++ and GROMACS. All simulations are fully-atomistic. </p> <p>In "ligand" are reported the results of ligand solvation free energy both in ESPResSo++ and GROMACS. All simulations are fully-atomistic. </p> <p>====</p> <p>The "decoupling" folder contains all results concerning the calculation of binding free energy in case of decoupling and it is divided in three parts: </p> <p>- complex-DualRes<br> - complex-FullyAT<br> - ligand</p> <p>In "complex-DualRes" are reported the results of Ligand-Protein FE only in ESPResSo++ (GROMACS cannot do decoupling). The system is simulated in Dual-Resolution. It is possible to find the trajectory files in the sub-directories "lambdaindex-0" and "lambdaindex-30".</p> <p>In "complex-fullyAT" are reported the results of Ligand-Protein FE only in ESPResSo++. The system simulated is fully-atomistic. It is possible to find the trajectory file in the sub-directories "lambdaindex-0" and "lambdaindex-30".</p> <p>In "ligand" are reported the results of ligand solvation free energy only in ESPResSo++. All simulations are fully-atomistic. It is possible to find the trajectory file in the sub-directories "lambdaindex-0" and "lambdaindex-20".</p> <p>====</p> <p>The "density" folder contains the data for the tuning of the c parameter of the steric repulsion among residues. This parameter is tuned so that the water density attains the value computed in all-atom simulations.</p>
Marker files for assessing Prochlorococcus genome completness
<p>Use these files with CheckM to assess Prochlorococcus genome completeness:</p> <p><em>pro-marker-checkm-refined.txt</em></p> <p>List of custom PFAM and TIGRFAM identifiers used to assess genome completeness in <em>Prochlorococcus</em> using checkM</p> <p><em>pro-marker-checkm-refined.ms</em></p> <p>CheckM marker file of custom PFAM and TIGRFAM identifiers used to assess genome completeness in <em>Prochlorococcus</em>.</p> <p><em>pro-marker-checkm-refined.hmm</em></p> <p>HMM file of custom Prochlorococcus markers for use with CheckM and hmmer3</p>
Adjoint-based Data Assimilation of an Epidemiology Model for the Covid-19 Pandemic in 2020 --- Data Files
<p>New data on github:</p> <p>https://github.com/sesterhenn/Corona-DataAssimilation</p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p>doi://10.5281/zenodo.3732292</p> <p>https://zenodo.org/record/3733244</p>
68 image lysozyme dataset recorded on the Jungfrau 16M detector at SwissFEL and formatted as a NeXus file
<p>Data provided by Meitian Wang at PSI and master file revised May 2020 for full NXmx compliance.</p> <p>To create a new NeXus master file, assuming DIALS is installed in the folder $DIALS, use this command:</p> <p>libtbx.python $DIALS/modules/cctbx_project/xfel/swissfel/jf16m_cxigeom2nexus.py unassembled_file=lyso009a_0087.JF07T32V01.h5 geom_file=16M_bernina_backview_optimized_adu_quads.geom wavelength=1.368479 detector_distance=97.830 mask_file=lyso009a_0087.JF07T32V01.mask.h5 nexus_details.start_time=2018-01-00T00:00:00.000 nexus_details.end_time=2018-01-00T00:00:02.720Z nexus_details.end_time_estimated=2018-01-00T00:00:02.720Z nexus_details.sample_name=Lysozyme nexus_details.total_flux=1000000000000</p> <p>Some notes about the parameters:<br> - Geometry file is in CrystFEL format but has been realigned to group the modules hierarchically into quadrants.<br> - Wavelength is a single wavelength for the whole dataset, but options exist to do 1 wavelength per image, or a whole spectrum per image.<br> - Start and end times are example timestamps for illustration. End times are estimated for 68 frames using a 25 Hz recording rate.<br> - Total flux of 1e12 photons is an estimate.</p> <p>View the data using DIALS: dials.image_viewer lyso009a_0087.JF07T32V01_master.h5</p> <p>Process the data using DIALS, treating the images as stills, assuming 64 cores available on the system:<br> dials.stills_process mp.nproc=64 lyso009a_0087.JF07T32V01_master.h5 dispersion.gain=10 known_symmetry.space_group=P43212 known_symmetry.unit_cell=77,77,37,90,90,90 refinement_protocol.d_min_start=2.5</p> <p>Download DIALS at dials.github.io.</p>
Duhumbi Personal Narratives - Transcribed, parsed, glossed, translated text files
<p>This data set contains the .wav sound files, .trs Transcriber files, .txt Toolbox-compatible Notepad files and .pdf files with the completely transcribed, glossed, parsed and translated examples of the following recordings that belong to the following publication:</p> <p>Bodt, Timotheus Adrianus. 2020. Grammar of Duhumbi. Leiden: Brill. ISBN 978-90-04-40947-7. <a href="https://brill.com/view/title/55767">https://brill.com/view/title/55767</a></p> <ul> <li>[CHUK230512D1A] / CMT / The story of the former CM’s death</li> <li>[CHUK230512C1A] / LHT / The history of Laphek village</li> <li>[CHUK230512B1] / THT / Hunting takin</li> <li>[CHUK260413A3A]/ ACK / Alcohol consumption</li> <li>[CHUK131014] / DTPK / Chasing the demons</li> </ul> <p>The explanation of all the grammatical features that occur in these sound files can be found in the Grammar of Duhumbi.</p> <p>The main Toolbox files can be found in the zip file “Settings”, this includes the IPA keys for Duhumbi, the entire setup of the Toolbox database, and the Duhumbi dictionary and Parsing dictionary.</p> <p>The .wav, .txt and .trs files combined in the same folder will enable to open Toolbox and work with the recordings, e.g. play them sentence for sentence and see the transcriptions and translations.</p> <p>Transcriber version 1.5.1: <a href="http://trans.sourceforge.net/en/presentation.php">http://trans.sourceforge.net/en/presentation.php</a> or <a href="https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/">https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/</a></p> <p>Toolbox version 1.6.1: <a href="https://software.sil.org/toolbox/download/">https://software.sil.org/toolbox/download/</a></p> <p>For the metadata of the sound files in this data set, I refer to Chapter 13 Texts in the Grammar of Duhumbi. This Chapter has a complete listing of the texts, their topics, the speakers and their background etc.</p> <p>This material is made freely available to everyone for informative or scientific purposes as long as the source (this DOI) / the collectors are properly credited. Please note that use of the material for commercial purposes <strong><em>of any kind</em></strong><em>, which includes conversion into commercial audio-visual media (documentaries etc.), storage and dissemination through sites that require registration & payment for access, or sites that rely on advertisement (including YouTube) </em>is <strong>not</strong> permitted without <strong>specific written consent</strong> from the speakers and their community, obtained through the collectors of the material. By downloading our material, you agree to these restrictions.</p> <p>This data set falls under the Attribution-NonCommercial-ShareAlike (CC BY-NC-SA) license. This license lets you remix, tweak, and build upon this work non-commercially, as long as you credit us and license your new creations under the identical terms. License Deed on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">https://creativecommons.org/licenses/by-nc-sa/4.0/</a>. Legal Code on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode">https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode</a>.</p> <p>Tim Bodt: monpasang (at) gmail (dot) com</p>
Duhumbi Religious Texts and Song - Transcribed, parsed, glossed, translated text files
<p>This data set contains the .wav sound files, .trs Transcriber files, .txt Toolbox-compatible Notepad files and .pdf files with the completely transcribed, glossed, parsed and translated examples of the following recordings that belong to the following publication:</p> <p>Bodt, Timotheus Adrianus. 2020. Grammar of Duhumbi. Leiden: Brill. ISBN 978-90-04-40947-7. <a href="https://brill.com/view/title/55767">https://brill.com/view/title/55767</a></p> <ul> <li>[CHUK110413A2A] / RELJ / Buddhist admonition</li> <li> [CHUK221212D2A] / JIK / Bonpo prediction text</li> <li> [CHUK260413A1] / MSK / Impromptu song</li> </ul> <p>The explanation of all the grammatical features that occur in these sound files can be found in the Grammar of Duhumbi.</p> <p>The main Toolbox files can be found in the zip file “Settings”, this includes the IPA keys for Duhumbi, the entire setup of the Toolbox database, and the Duhumbi dictionary and Parsing dictionary.</p> <p>The .wav, .txt and .trs files combined in the same folder will enable to open Toolbox and work with the recordings, e.g. play them sentence for sentence and see the transcriptions and translations.</p> <p>Transcriber version 1.5.1: <a href="http://trans.sourceforge.net/en/presentation.php">http://trans.sourceforge.net/en/presentation.php</a> or <a href="https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/">https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/</a></p> <p>Toolbox version 1.6.1: <a href="https://software.sil.org/toolbox/download/">https://software.sil.org/toolbox/download/</a></p> <p>For the metadata of the sound files in this data set, I refer to Chapter 13 Texts in the Grammar of Duhumbi. This Chapter has a complete listing of the texts, their topics, the speakers and their background etc.</p> <p>This material is made freely available to everyone for informative or scientific purposes as long as the source (this DOI) / the collectors are properly credited. Please note that use of the material for commercial purposes <strong><em>of any kind</em></strong><em>, which includes conversion into commercial audio-visual media (documentaries etc.), storage and dissemination through sites that require registration & payment for access, or sites that rely on advertisement (including YouTube) </em>is <strong>not</strong> permitted without <strong>specific written consent</strong> from the speakers and their community, obtained through the collectors of the material. By downloading our material, you agree to these restrictions.</p> <p>This data set falls under the Attribution-NonCommercial-ShareAlike (CC BY-NC-SA) license. This license lets you remix, tweak, and build upon this work non-commercially, as long as you credit us and license your new creations under the identical terms. License Deed on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">https://creativecommons.org/licenses/by-nc-sa/4.0/</a>. Legal Code on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode">https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode</a>.</p> <p>Tim Bodt: monpasang (at) gmail (dot) com</p>
Duhumbi Grammar - Sound Files, Toolbox and Transcriber File, PDFs of files
<p>This data set contains the .wav sound files, .trs Transcriber files, .txt Toolbox-compatible Notepad files and .pdf files with the completely transcribed, glossed, parsed and translated examples of the recordings that belong to the following publication:</p> <p>Bodt, Timotheus Adrianus. 2020. Grammar of Duhumbi. Leiden: Brill. ISBN 978-90-04-40947-7. <a href="https://brill.com/view/title/55767">https://brill.com/view/title/55767</a></p> <p>The explanation of all the grammatical features that occur in these sound files can be found in the Grammar of Duhumbi.</p> <p>The main Toolbox files can be found in the zip file “Settings”, this includes the IPA keys for Duhumbi, the entire setup of the Toolbox database, and the Duhumbi dictionary and Parsing dictionary.</p> <p>The .wav, .txt and .trs files combined in the same folder will enable to open Toolbox and work with the recordings, e.g. play them sentence for sentence and see the transcriptions and translations.</p> <p>Transcriber version 1.5.1: <a href="http://trans.sourceforge.net/en/presentation.php">http://trans.sourceforge.net/en/presentation.php</a> or <a href="https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/">https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/</a></p> <p>Toolbox version 1.6.1: <a href="https://software.sil.org/toolbox/download/">https://software.sil.org/toolbox/download/</a></p> <p>This data set contains the files belonging to the sound files as mentioned in the pdf file “Duhumbi Grammar All Files Upload 1”. The S/N code corresponds to the code used in the Grammar to identify the text from which an example was taken. The name of the file refers to the name of the .wav, .trs, .txt and .pdf files in this upload. The subject is a short description of the topic of the text. The duration is the duration of the recording.</p> <p>For the metadata of the sound files in this data set, I refer to Chapter 13 Texts in the Grammar of Duhumbi. This Chapter has a complete listing of the texts, their topics, the speakers and their background etc.</p> <p>This material is made freely available to everyone for informative or scientific purposes as long as the source (this DOI) / the collectors are properly credited. Please note that use of the material for commercial purposes <em><strong>of any kind</strong>, which includes conversion into commercial audio-visual media (documentaries etc.), storage and dissemination through sites that require registration & payment for access, or sites that rely on advertisement (including YouTube) </em>is <strong>not</strong> permitted without <strong>specific written consent</strong> from the speakers and their community, obtained through the collector of the material. By downloading this material, you agree to these restrictions.</p> <p>This data set falls under the Attribution-NonCommercial-ShareAlike (CC BY-NC-SA) license. This license lets you remix, tweak, and build upon this work non-commercially, as long as you credit us and license your new creations under the identical terms. License Deed on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">https://creativecommons.org/licenses/by-nc-sa/4.0/</a>. Legal Code on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode">https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode</a>.</p> <p>Tim Bodt: monpasang (at) gmail (dot) com</p>
Duhumbi Procedural Texts - Transcribed, parsed, glossed, translated text files
<p>This data set contains the .wav sound files, .trs Transcriber files, .txt Toolbox-compatible Notepad files and .pdf files with the completely transcribed, glossed, parsed and translated examples of the following recordings that belong to the following publication:</p> <p>Bodt, Timotheus Adrianus. 2020. Grammar of Duhumbi. Leiden: Brill. ISBN 978-90-04-40947-7. <a href="https://brill.com/view/title/55767">https://brill.com/view/title/55767</a></p> <ul> <li>[CHUK210512I1] / PHPT / Hunting for porcupine </li> <li>[CHUK230512A1A] / SBDC / Making fermented soybean</li> <li>[CHUK220413A1] / CTTT / Catching frogs </li> <li>[CHUK220413B1] / CWTT / Collecting beeswax </li> <li>[CHUK220413C1] / CHTT / Collecting hornets</li> <li>[CHUK240413A1] / SNAP / Collecting stinging nettle </li> <li>[CHUK240413B1] / LCYT / Leather craft </li> </ul> <p>The explanation of all the grammatical features that occur in these sound files can be found in the Grammar of Duhumbi.</p> <p>The main Toolbox files can be found in the zip file “Settings”, this includes the IPA keys for Duhumbi, the entire setup of the Toolbox database, and the Duhumbi dictionary and Parsing dictionary.</p> <p>The .wav, .txt and .trs files combined in the same folder will enable to open Toolbox and work with the recordings, e.g. play them sentence for sentence and see the transcriptions and translations.</p> <p>Transcriber version 1.5.1: <a href="http://trans.sourceforge.net/en/presentation.php">http://trans.sourceforge.net/en/presentation.php</a> or <a href="https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/">https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/</a></p> <p>Toolbox version 1.6.1: <a href="https://software.sil.org/toolbox/download/">https://software.sil.org/toolbox/download/</a></p> <p>For the metadata of the sound files in this data set, I refer to Chapter 13 Texts in the Grammar of Duhumbi. This Chapter has a complete listing of the texts, their topics, the speakers and their background etc.</p> <p>This material is made freely available to everyone for informative or scientific purposes as long as the source (this DOI) / the collectors are properly credited. Please note that use of the material for commercial purposes <em><strong>of any kind</strong>, which includes conversion into commercial audio-visual media (documentaries etc.), storage and dissemination through sites that require registration & payment for access, or sites that rely on advertisement (including YouTube) </em>is <strong>not</strong> permitted without <strong>specific written consent</strong> from the speakers and their community, obtained through the collector of the material. By downloading this material, you agree to these restrictions.</p> <p>This data set falls under the Attribution-NonCommercial-ShareAlike (CC BY-NC-SA) license. This license lets you remix, tweak, and build upon this work non-commercially, as long as you credit properly and license your new creations under the identical terms. License Deed on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">https://creativecommons.org/licenses/by-nc-sa/4.0/</a>. Legal Code on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode">https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode</a>.</p> <p>Tim Bodt: monpasang (at) gmail (dot) com</p>
Duhumbi Discussions - Transcribed, parsed, glossed, translated text files
<p>This dataset contains the .wav sound files, .trs Transcriber files, .txt Toolbox-compatible Notepad files and .pdf files with the completely transcribed, glossed, parsed and translated examples of the following recordings that belong to the following publication:</p> <p>Bodt, Timotheus Adrianus. 2020. Grammar of Duhumbi. Leiden: Brill. ISBN 978-90-04-40947-7. <a href="https://brill.com/view/title/55767">https://brill.com/view/title/55767</a></p> <ul> <li>[CHUKxxxx13A6] / LEL / Local elections (not included on speaker's request)</li> <li>[CHUK300412J2] / LGT / Planning a trip to Lagam</li> <li>[CHUK260413A2A] / NNK / Nicknames</li> </ul> <p>The explanation of all the grammatical features that occur in these sound files can be found in the Grammar of Duhumbi.</p> <p>The main Toolbox files can be found in the zip file “Settings”, this includes the IPA keys for Duhumbi, the entire setup of the Toolbox database, and the Duhumbi dictionary and Parsing dictionary.</p> <p>The .wav, .txt and .trs files combined in the same folder will enable to open Toolbox and work with the recordings, e.g. play them sentence for sentence and see the transcriptions and translations.</p> <p>Transcriber version 1.5.1: <a href="http://trans.sourceforge.net/en/presentation.php">http://trans.sourceforge.net/en/presentation.php</a> or <a href="https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/">https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/</a></p> <p>Toolbox version 1.6.1: <a href="https://software.sil.org/toolbox/download/">https://software.sil.org/toolbox/download/</a></p> <p>For the metadata of the sound files in this data set, I refer to Chapter 13 Texts in the Grammar of Duhumbi. This Chapter has a complete listing of the texts, their topics, the speakers and their background etc.</p> <p>This material is made freely available to everyone for informative or scientific purposes as long as the source (this DOI) / the collectors are properly credited. Please note that use of the material for commercial purposes <em><strong>of any kind</strong>, which includes conversion into commercial audio-visual media (documentaries etc.), storage and dissemination through sites that require registration & payment for access, or sites that rely on advertisement (including YouTube) </em>is <strong>not</strong> permitted without <strong>specific written consent</strong> from the speakers and their community, obtained through the collectors of the material. By downloading our material, you agree to these restrictions.</p> <p>This data set falls under the Attribution-NonCommercial-ShareAlike (CC BY-NC-SA) license. This license lets you remix, tweak, and build upon this work non-commercially, as long as you credit us and license your new creations under the identical terms. License Deed on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">https://creativecommons.org/licenses/by-nc-sa/4.0/</a>. Legal Code on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode">https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode</a>.</p> <p>Tim Bodt: monpasang (at) gmail (dot) com</p>
Duhumbi Grammar - Sound Files, Toolbox and Transcriber File, PDFs of files (Part 2)
<p>This data set contains the .wav sound files, .trs Transcriber files, .txt Toolbox-compatible Notepad files and .pdf files with the completely transcribed, glossed, parsed and translated examples of the recordings that belong to the following publication:</p> <p>Bodt, Timotheus Adrianus. 2020. Grammar of Duhumbi. Leiden: Brill. ISBN 978-90-04-40947-7. <a href="https://brill.com/view/title/55767">https://brill.com/view/title/55767</a></p> <p>The explanation of all the grammatical features that occur in these sound files can be found in the Grammar of Duhumbi.</p> <p>The main Toolbox files can be found in the zip file “Settings”, this includes the IPA keys for Duhumbi, the entire setup of the Toolbox database, and the Duhumbi dictionary and Parsing dictionary.</p> <p>The .wav, .txt and .trs files combined in the same folder will enable to open Toolbox and work with the recordings, e.g. play them sentence for sentence and see the transcriptions and translations.</p> <p>Transcriber version 1.5.1: <a href="http://trans.sourceforge.net/en/presentation.php">http://trans.sourceforge.net/en/presentation.php</a> or <a href="https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/">https://osdn.net/projects/sfnet_trans/downloads/transcriber/1.5.1/Transcriber-1.5.1-Windows.exe/</a></p> <p>Toolbox version 1.6.1: <a href="https://software.sil.org/toolbox/download/">https://software.sil.org/toolbox/download/</a></p> <p>This data set contains the files belonging to the sound files as mentioned in the pdf file “Duhumbi Grammar All Files Upload 2”. The S/N code corresponds to the code used in the Grammar to identify the text from which an example was taken. The name of the file refers to the name of the .wav, .trs, .txt and .pdf files in this upload. The subject is a short description of the topic of the text. The duration is the duration of the recording.</p> <p>For the metadata of the sound files in this data set, I refer to Chapter 13 Texts in the Grammar of Duhumbi. This Chapter has a complete listing of the texts, their topics, the speakers and their background etc.</p> <p>This material is made freely available to everyone for informative or scientific purposes as long as the source (this DOI) / the collectors are properly credited. Please note that use of the material for commercial purposes <em><strong>of any kind</strong>, which includes conversion into commercial audio-visual media (documentaries etc.), storage and dissemination through sites that require registration & payment for access, or sites that rely on advertisement (including YouTube) </em>is <strong>not</strong> permitted without <strong>specific written consent</strong> from the speakers and their community, obtained through the collector of the material. By downloading this material, you agree to these restrictions.</p> <p>This data set falls under the Attribution-NonCommercial-ShareAlike (CC BY-NC-SA) license. This license lets you remix, tweak, and build upon this work non-commercially, as long as you credit us and license your new creations under the identical terms. License Deed on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/">https://creativecommons.org/licenses/by-nc-sa/4.0/</a>. Legal Code on <a href="https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode">https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode</a>.</p> <p>Tim Bodt: monpasang (at) gmail (dot) com</p>
Data files for: Comparison of high-speed optical observations of a lightning flash from space and the ground
<p>This dataset accompanies the paper in the AGU open acces journal <em>Earth and Space Science</em>, special section "A New Era of Lightning Observations From Space"<em> </em>and contains data of the lightning flash in Colombia detected by:</p> <ul> <li>Geostationary Lightning Mapper (GLM) </li> <li>Lightning Imaging Sensor on the International Space Station (ISS-LIS) </li> <li>Atmosphere-Space Interactions Monitor - Modular Multi-spectral Imaging Array (ASIM MMIA)</li> <li>High-speed intensified Phantom V7.3 camera fielded in Cartagena, Colombia.</li> </ul> <p>The high-speed video .cine files can be read by (free) CineViewer and PCC software of Vision Research Inc. which can convert to avi files. For any questions, contact the first author.</p>
DataHawk2 files from LAPSE-RATE
<p>This dataset includes measurements obtained using the University of Colorado DataHawk2 UAS during the 2018 LAPSE-RATE (Lower Atmospheric Profiling Studies at Elevation - a Remotely-piloted Aircraft Team Experiment) field campaign. This campaign took place in the San Luis Valley of Colorado between 14-21 July, 2018.</p> <p><strong>All parties downloading the data are asked to cite the original research team and funding body when appropriate, and when using images and data in publications, presentations or other public displays. The DOI for the current dataset, and associated articles should be referenced whenever the dataset is used for scientific analysis.</strong></p>
Supplementary Material Containing DFT Structure Files and Convergence Tests for our μSR study on Fe2O3
<p>Supplemental material for <em>Local Electronic Structure and Dynamics of Muon-Polaron Complexes in Fe<sub>2</sub>O<sub>3</sub></em></p> <p>M. H. Dehn,<sup>1,2,3</sup> J. K. Shenton,<sup>4,*</sup> D. J. Arseneau,<sup>3</sup> W. A. MacFarlane,<sup>2,3,5</sup> G. D. Morris,<sup>3</sup> A. Maigné,<sup>2</sup> N. A. Spaldin<sup>4</sup> and R. F. Kiefl<sup>1,2,3</sup></p> <p><sup>1</sup>Department of Physics and Astronomy, University of British Columbia, Vancouver, BC V6T 1Z1, Canada<br> <sup>2</sup>Stewart Blusson Quantum Matter Institute, University of British Columbia, Vancouver, BC V6T 1Z4, Canada<br> <sup>3</sup>Triumf, Vancouver, BC V6T 2A3, Canada<br> <sup>4</sup>Department of Materials, ETH Zurich, CH-8093 Zürich, Switzerland<br> <sup>5</sup>Department of Chemistry, University of British Columbia, Vancouver, BC, V6T 1Z1, Canada<br> <sup>*</sup> For queries about the supplemental material in this repository contact <a href="mailto:john.shenton@mat.ethz.ch">J. Kane Shenton</a>.</p> <p>In these notebooks we provide supplemental material for our work on understanding the behaviour of muon-polaron complexes in Fe<sub>2</sub>O<sub>3</sub>.</p> <p>We provide VASP input and output files for each of the candidate muon stopping sites and states identified in the paper (also labelled as in the paper). We summarise the muon stopping sites and provide the code for analysing hyperfine tensors in the jupyter notebook: <a href="https://nbviewer.jupyter.org/github/Shenton-supplemental/Muons_in_Fe2O3/blob/master/Muon-site-summary.ipynb"><code>Muon-site-summary.ipynb</code></a>. There one can also find a summary of the <strong>computational details</strong> for the paper.</p> <p>We further provide <code>vasprun.xml</code> files for some of the tests of convergence with respect to plane-wave cutoff energy and k-point sampling density. These tests are summarised in the jupyter notebook: <a href="https://nbviewer.jupyter.org/github/Shenton-supplemental/Muons_in_Fe2O3/blob/master/Convergence_tests-ENCUT-KPOINTS.ipynb"><code>Convergence_tests-ENCUT-KPOINTS.ipynb</code></a>.</p> <p>A major source of uncertainty stems from the choice of Hubbard U<sub>eff</sub> correction. We varied U<sub>eff</sub> in the range 3 − 6 eV to gauge the impact of this parameter on the predicted energies and precession frequencies of the four charge-neutral muon-polaron complex states. This analysis is available in the notebook: <code><a href="https://nbviewer.jupyter.org/github/Shenton-supplemental/Muons_in_Fe2O3/blob/master/muons_wrt_U.ipynb">muons_wrt_U.ipynb</a>.</code> Although the numerical values do vary as a function of U<sub>eff</sub>, the qualitative behaviour as well as the ordering of frequencies and energy differences presented in the paper (corresponding to U<sub>eff</sub> = 4 eV) remain robust throughout the range: 3 − 5 eV which is the range typically employed for Fe <em>d</em> states.</p> <p>Finally, in the notebook: <a href="https://nbviewer.jupyter.org/github/Shenton-supplemental/Muons_in_Fe2O3/blob/master/Separating_the_muon-polaron_complex.ipynb"><code>Separating_the_muon-polaron_complex.ipynb</code></a>, we analyse the separation of muon from the polaron in different configurations. Here again we provide the VASP input and output files as well as the code used to analyse these results.</p> <p>These jupyter notebooks may be previewed on <a href="https://github.com/Shenton-supplemental/Muons_in_Fe2O3">github</a> or via the <a href="https://nbviewer.jupyter.org/github/Shenton-supplemental/Muons_in_Fe2O3">jupyter notebook viewer</a>. The latter does a better job of rendering the inline LaTeX and is therefore preferred.</p> <p>Note that all of files are currently compressed to save space. These must be uncompressed before the notebooks will run. In each notebook there is a cell one can run to decompress the files needed for that particular notebook.</p>
GIIRS RTTOV coefficient file using local training profiles
<p>GIIRS RTTOV coefficient file using local training profiles </p> <p>Reference:</p> <p>Di, D., Jun Li, Han Wei, W. Bai, C. Wu, and W. Paul Menzel, 2018: Enhancing the fast radiative transfer model for FengYun-4 GIIRS by using local training profiles, <em>Journal of Geophysical Research - Atmospheres</em>, DOI: 10.1029/2018JD029089.</p>
LEOSS Public Use File
<p>Anonymized Public Use File of the Lean European Open Survey on SARS-CoV-2 (LEOSS), a European registry for studying the epidemiology and clinical course of COVID-19 (see: https://leoss.net/).</p>
Support files for draft genome of the Asian buffalo leech, Hirudinaria manillensis
<p>The assembly fasta file, TE and gene gff files, and annotations for the draft genome of the Asian buffalo leech, Hirudinaria manillensis. </p>
Talon files from LAPSE-RATE
<p>This dataset includes measurements obtained using the University of Colorado Talon UAS during the 2018 LAPSE-RATE (Lower Atmospheric Profiling Studies at Elevation - a Remotely-piloted Aircraft Team Experiment) field campaign. This campaign took place in the San Luis Valley of Colorado between 14-21 July, 2018.</p> <p><strong>All parties downloading the data are asked to cite the original research team and funding body when appropriate, and when using images and data in publications, presentations or other public displays. The DOI for the current dataset, and associated articles should be referenced whenever the dataset is used for scientific analysis.</strong></p>
Relations in the Biographical Dictionary of Republican China - Node & Edge lists and Attribute File
<p>This dataset contains the node and edge lists of relations in the BDRC. They are based on the "Relations in the Biographical Dictionary of Republican China - Standardized output" file in this repository. The attributes of the nodes refer only to the main 589 figures in the BDRC.</p>
Supplementary files for "A comparison of single and double Co sites incorporated in N-doped graphene for the oxygen reduction reaction"
<p>DFT optimised structures used for the paper "A comparison of single and double Co sites incorporated in N-doped graphene for the oxygen reduction reaction". There is a separate database for structures on the Co-N4 single site, each of the Co double sites and the molecular references. Manual and NEB paths for the splitting of OOH and O2 are included as separate databases. The structures can be retrieved using the Atomic Simulation Environment (ASE, https://wiki.fysik.dtu.dk/ase/).</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.