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394 results for “thesis”
Thesis Model Runs
<p>Archive of runs produced for Geanderson Ambrósio's Doctorate thesis, presented to the Federal University of Viçosa as part of the requirements of the Postgraduate Program in Applied Economics to obtain the title of Doctor Scientiae.</p>
Doctoral Thesis Artifact "User-Centered Tool Design for Data-Flow Analysis"
<p>This artifact contains the evaluation data and source code accompanying the doctoral thesis "User-Centered Tool Design for Data-Flow Analysis" by Lisa Nguyen Quang Do. The artifact contains (1) the survey questions and anonymized answers of the surveys conducted during the thesis, (2) the user study questionnaires, results, and test applications of the user studies conducted for the thesis, (3) the source code of the research prototypes and video demonstrations of their interfaces, and (4) the benchmark suites used for the empirical evaluation of those prototypes.</p>
Digital Attachment: PhD Thesis Fiona Rochholz, Univ. Bremen, MARUM
<p>Digital Attachment for PhD Thesis by Fiona Rochholz, submitted September 2019 at University of Bremen, Germany.</p> <p>Please contact author for additional questions.</p>
fNIRS-DOT videos from David Orive-Miguel PhD thesis
<p>fNIRS Diffuse Optical Tomography videos. The experimental measurements were obtained during my secondment at Politecnico di Milano.</p>
Figure 2 in PhD Thesis Summary: Biologie, écologie et conservation du requin peau bleue (Prionace glauca) et du requin mako (Isurus oxyrinchus) en Atlantique nord-est
Figure 2. – Mercury level (mg kg-1 fresh meat) and body mass index (BMI, kg/cm2) in blue shark (u, N = 37) and shortfin mako (l, N = 46). Dotted line section of the curve represents the extrapolation from regression analysis for blue sharks.
Figure 4 in PhD Thesis Summary: Biologie, écologie et conservation du requin peau bleue (Prionace glauca) et du requin mako (Isurus oxyrinchus) en Atlantique nord-est
Figure 4. – Observed mercury level (Hg) (u, l) and estimated values (s) using body mass index (BMI, kg/cm2) as a function of mass (TL, cm). A: Blue shark (N = 37); B: Shortfin mako (N = 46).
Figure 1. – A in PhD Thesis Summary: Biologie, écologie et conservation du requin peau bleue (Prionace glauca) et du requin mako (Isurus oxyrinchus) en Atlantique nord-est
Figure 1. – A: Body mass index (BMI, kg/cm2) and size (TL, cm) in blue shark (N = 37) and shortfin mako (N = 46). B: Body mass index (BMI, kg/cm2) and total mass (W, kg) in blue shark (N = 37) and shortfin mako (N = 46).
Figure 3 in PhD Thesis Summary: Biologie, écologie et conservation du requin peau bleue (Prionace glauca) et du requin mako (Isurus oxyrinchus) en Atlantique nord-est
Figure 3. – Observed mercury level (Hg) (u, l) and estimated values (s) using body mass index (BMI, kg/cm2) as a function of size (TL, cm). A: Blue shark (N = 37); B: Shortfin mako (N = 46).
Master's Thesis - Audio Files
<p><strong>Comparison of machine learning-based music source separation algorithms with respect to vocal timbre</strong></p> <p><strong>Master's Thesis - Audio Files</strong></p> <p>State-of-the-art music source separation algorithms are commonly evaluated using standard evaluation metrics. Spectral features such as the Spectral Centroid are used in this thesis to describe the quality of selected algorithms. Interesting statements about the quality of modern music source separation algorithms can be made based on vocal recordings especially produced for this thesis. It can be solidly argued that the gender of the singers and the song's language have almost no influence on the quality of the algorithms. In contrast, the genre and the associated instrumentation play a much more significant role. This thesis attempts to introduce the evaluation metric Mean Absolute Error of Spectral Centroids (MAESC) among others, which could be used in the development of future MSS algorithms. </p> <p>In the course of further investigation, vocal recordings were made, which will serve as additional data material. The recordings were made at the University of Music and Performing Arts Vienna (MDW) on the 3rd of July 2024.</p> <p>Two female and two male singers sang the same five pop songs under the same conditions in the same studio with the same microphone and the same vocal processing chain. The songs were selected in advance based on their musical genre and instrumentation in order to achieve variety. The musical accompaniment has been provided by the company “Tency Music”.</p> <p>The vocal quality and technique of the performers as well as the technical equipment is state-of-the-art. The recordings were made with an Apple MacBook Air M2, 2022 using the software Ableton Live 11. The 2-channel USB-C audio interface SSL 2 from “Solid State Logic” was connected to the MacBook Air. The microphone was a Neumann U87 Ai studio microphone. The recordings were made in a professional recording studio and the conditions were identical for all singers. The recording engineer processed all the files with the same effects chain (delay, reverb) so that a comparison can be drawn.</p> <p>The respective MIXES as well as the REFERENCES of the individual singers can be downloaded. The audio files provided may only be used for academic purposes and are protected by copyright.</p> <p>Vienna, 16/09/2024</p>
Cohen AG Hons Thesis Project Dataset and RStudio Codes
<div>The attached codes were written by AG Cohen to analyse the attached data obtained from an experimental taphonomy experiment conducted at the Australian Facility for Taphonomic Experimental Research (AFTER). Six human donors were buried on the left side in flexion. Four donors were buried in a fresh state and two donors were naturally mummified by desiccation prior to burial. The donors were excavated after ~5 to 7 years of burial.</div> <div>The project aimed to explore the correlation between joint flexion and mode of deposition, testing the hypothesis proposed by archaeothanatological scholars that hyperflexion is only achievable in multistage depositions, such as those in which mummification precedes interment, permitting a tighter closure of flexor surfaces than would be achievable in life with the obstruction of soft-tissues.</div> <div> </div> <div>The main aim was to determine if there was any post-burial movement of the lower limbs and a statistically significant difference in flexion angles between the 'mummy' and ‘fresh’ experiment groups. It also provided new insights by comparing the reliability of 2D and 3D methods in measuring joint angles from the skeletal remains and established by what parameters we can define hyperflexion. The data and codes are used to explore this correlation, the agreement between 2D and 3D methods, and the consistency of the measurement methods when performed by one rater (repeats) and multiple beta-testers.</div>
Nonlinear methods for dimensionality reduction and clustering of bacterial single-cell sequencing data - intermediate data and figures (MSc thesis)
<p>Data, intermediate results and figures for analyses of my master's thesis in biostatistics at LMU Munich. I took a look on how to use Nonlinear Matrix Decomposition (NMD) (<a href="https://doi.org/10.1137/21M1405769">Saul, L., 2022</a>) in the context of bacterial scRNA-seq analysis (Heumos, L., et. al. 2023), replacing Principal Component Analysis in the optimized workflow, as outlined in Ostner, J. (2024).</p> <p>My thesis was structured along the following objectives:</p> <ul> <li>implement the algorithms from <a href="https://arxiv.org/abs/2305.08687">Seraghiti, G., et. al. (2023)</a> in the Python module <a href="https://github.com/flatironinstitute/nomad/">nomad</a> in cooperation with <a href="https://www.simonsfoundation.org/flatiron/" rel="nofollow">Flatiron Institute</a></li> <li>code for the simulation study of the algorithms in <a href="https://arxiv.org/abs/2305.08687">Seraghiti, G., et. al. (2023)</a> with varying sparsity can be found in <code>/simulation</code></li> <li>apply NMD in the context of the BacSC workflow (<a href="https://www.biorxiv.org/content/10.1101/2024.06.22.600071v1">Ostner, J., et. al. (2024)</a>) on raw and normalized counts (found in <code>/application/analysis</code>), also for manually set number of latent dimensions</li> <li>explore NMD's potential for imputation of <a href="https://www.nature.com/articles/s41467-021-27729-z" rel="nofollow">sampling zeros</a> (check <code>/application/NMD_zero_imputation /</code>)</li> <li>potential of Poisson-Hurdle model-based clustering (<a href="https://academic.oup.com/bioinformatics/article/39/1/btac782/6873739">Qiao, Z., et. al. (2023)</a>) for scRNA-seq (<code>/application/poisson_hurdle</code>).</li> </ul>
Collaborative Program Comprehension based on Augmented Reality (Evaluation Results of Master's Thesis)
<p>The dataset contains feedback generated through a survey for an augmented reality approach in the ExplorViz project.</p> <p>The dataset includes the results for a pilot study with two probands and the results for a case study with 20 probands.</p>
Thesis summary in South African Sign Language
<p>The summary of the doctoral thesis: Community-Based Co-Design for Accessible Health Information for Deaf People in a Context with Societal Complexity is presented in South Africa Sign Language to provide information accessible to Deaf people. </p>
TDX Thesis Spanish Corpus
<p>The TDX Thesis Spanish Corpus is a 246-million-token corpus of Spanish clean text extracted from scientific thesis of the domain <a href="http://tdx.cat">tdx.cat</a>, which contains open thesis published by Catalan universities. The corpus has been preprocessed and deduplicated using the <a href="https://github.com/TeMU-BSC/corpus-cleaner-acl">Corpus-Cleaner</a> pipeline.</p> <p>It consists of 248.676.517 tokens, 8.156.059 sentences and 9.790. Documents are separated by single new lines.</p> <p>We license the actual packaging of these data under a <a href="https://creativecommons.org/licenses/by/4.0/">Attribution 4.0 International License</a>.</p> <p>Copyright by Secretaría de Estado de Digitalización e Inteligencia Artificial (SEDIA) (2022)</p>
M. Kelly PhD thesis; Chapter 2 - Supplemental Table S1
<p>Supplemental Table for my PhD thesis (Chapter 2). Supplemental Table S1 contains the sample data for all specimens used in this study.</p>
M. Kelly PhD thesis; Chapter 3 - Supplemental Table S1
<p>Supplemental Table for my PhD thesis (Chapter 3). Supplemental Table S1 contains all collection and processing data for the specimens used in this study.</p>
M. Kelly PhD thesis; Chapter 2 - Supplemental Table S2
<p>Supplemental Table for my PhD thesis (Chapter 2). Supplemental Table S2 contains the biometric data for all specimens used in this study.</p>
Supplemental videos to PhD thesis Evert de Froe: Dinner's Served in the Deep Sea.
<p>This file contains two supplemental videos to chapter 4 of the PhD thesis of Evert de Froe which is registered as follows:</p> <p>ISBN/EAN: 978-90-6266-643-0<br> Title: Dinner's Served in the Deep Sea<br> Subtitle: Environmental conditions, organic matter transport, and benthic fluxes at cold-water coral and sponge<br> communities in the deep sea.</p> <p>Author: Froe, Evert de</p> <p>Uitgever: Universiteit Utrecht,Bibliotheek Geowetenschappen/TNO</p> <p>Bibliografische imprint: Universiteit Utrecht,Bibliotheek Geowetenschappen/TNO</p> <p>NUR-code: 930</p> <p>NUR-omschrijving: Aardwetenschappen algemeen</p> <p>Reeks: Utrecht Studies in Earth Sciences</p> <p>Reeksnummer: 273</p> <p>Druk: 1</p> <p>Illustraties: Ja</p> <p>Aantal pagina's: 211</p> <p>Taal: Engels</p> <p>Verschijningsvorm: Paperback / softback</p> <p>Verschijningsdatum: 13-03-2023</p> <p> </p>
Appendices B to E for the Thesis: Investigating the Evolution and Ecology of Obscure Bacterial Symbioses found in Invertebrates, Ciliates and Algae
<p><strong>Appendix B1 contains all metadata for genomes assembled and genomes used, including accession numbers, CheckM scores and Gtdbtk taxonomy. You will also find supporting data for Chapter 2.</strong></p> <p><strong>Yellow tabs contain:</strong></p> <ul> <li>accessions and species information for all whole genomes used</li> <li>brief details on hosts and environment for new genomes described in this study</li> <li>metadata such as N50s and genome lengths for all new genomes</li> <li>completeness scores and assembly levels for all genomes</li> <li>information on where all the published genomes were used in this study</li> <li>taxonomy calculations from GTDBtk</li> </ul> <p><strong>Red tabs contain:</strong></p> <ul> <li>Phi scores from reticulate analysis for all core genome clusters extracted from the pangenome aswell as their associated COG and KEGG functions</li> <li>Functional enrichment tables exploring the association of different metabolic functions with different groups of bacteria</li> </ul> <p>----------------------------------------------------------------------------------------------------</p> <p><strong>Appendix C1 contains all metadata for genomes assembled and genomes used, including accession numbers and CheckM scores. You will also find raw data used to produce the figures in Chapter 3.</strong></p> <p><strong>Yellow tabs contain: </strong></p> <p>S1 - Meta data tables for draft genomes examined in this study </p> <p>S2 - Accessions for additional genomes used</p> <p><strong>Red tabs contain: </strong></p> <p>S3 - AAI % similarity across Ca. Megaira used in figure 3a</p> <p>S4 - ANIb % Similarity across Ca. Megaira used in figure 3b</p> <p>S5 - KEGG ko hits </p> <p>S6 - KEGG module completeness used in figure 5 and 6 </p> <p>S7 - 16S rRNA accessions used in phylogeny Figure 2</p> <p>S8 - Gene cluster presence absence matrix used in figure 3.4 and Appendix figure 1 </p> <p>S9 - GTDBtk results for SRA and GenBank Environmental MAGs </p> <p>S10 - top 10 blastp results for RiPP, NRPS and CDPS regions identified by antiSMASH</p> <p>----------------------------------------------------------------------------------------------------</p> <p><strong>Appendix D1 contains all metadata for genomes assembled and genomes used, including accession numbers, CheckM scores and Gtdbtk taxonomy. You will also find raw data used to produce the figures in Chapter 4.</strong></p> <p><strong>Yellow tabs contain:</strong></p> <p>S1 - Metadata for genomes assembled in this study</p> <p>S2 - Metadata for environmental MAGs recovered from NCBI non redundant sequence database</p> <p>S3 - Metadata for additional Chlamydiota genomes used</p> <p><strong>Red tabs contain:</strong></p> <p>S4 - AAI percentage similarity scores used to produce genera similarity networks</p> <p>S5 - ANIb percentage similarity scores used to produce species similarity networks</p> <p>S6 - CRISPRcas finder results</p> <p>S7 - KEGG pathway hits</p> <p>S8 - KEGG pathway completeness</p> <p>S9 - Gene cluster presence absence matrix used in figure 4.3a for Rhabdochlamydiaceae</p> <p>S10 - Gene cluster presence absence matrix used in figure 4.3b for Simkaniaceae</p> <p>----------------------------------------------------------------------------------------------------</p> <p><strong>Appendix E1 contains screening results, environmental data extracted from climate databases and additional genome information.</strong></p> <p><strong>Yellow tabs contain:</strong></p> <p>S1 - 'Ca. Tisiphia' in Anopheles plumbeus across Germany. PCR screening and geographic data</p> <p>S2 - additional genome accessions and metadata</p> <p><strong>Red tabs contain:</strong></p> <p>S3 - KEGG completeness</p> <p>S4 - KEGG ko_hits presence</p> <p> </p>
Supplementary data for eEDM study (to be published) and thesis
<p>The full output data for the eEDM project.</p> <p>Contains 4 iterations with different settings and the study on the impact of a single phase. Each iteration has a separate folder.</p> <p>The results after running SPheno, FeynHiggs, MicrOMEGAS and our in-house codes are then saved to a .csv file. These files can be found here. Each .csv file contains columns describing the parameter or observable that is taken from the output file of the relevant software package. Names are assumed to be self-explanatory (e.g. mn1 for the mass of the first neutralino).</p> <p>FT refers to fine-tuning as defined in our own in-house code.</p> <p>More details can be obtained upon request.</p>
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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.