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809 results for “network analysis”
Data from Automated plankton image analysis using convolutional neural networks
<p>Datasets and code from Luo et al., "Automated plankton image analysis using convolutional neural networks." Limnology and Oceanography Methods.</p> <p>Data include:</p> <p>1) 42,564 item training library, sorted in 108 classes,</p> <p>2) 42,548 item test set for filtering thresholds, sorted into 38 groups. These images are independent from the training library, and are used for setting the thresholds for post-classification filtering.<br> CSV file: Luo_etal_FT_images_pred.csv contains the image name, predicted class, predicted probability, and validated group. Note that the file class_to_group.csv is needed to match up the class names to the group names.</p> <p>3) 75,000 item fully random, validated set for confusion matrix calculations, sorted into 38 groups. This set is a representation of the full dataset, selected at random after classification. <br> CSV file: Luo_etal_confusionmatrix_images.csv contains the image name, predicted class, predicted probability, and validated group. Note that the file class_to_group.csv is needed to match up the class names to the group names.</p> <p> </p> <p>Scripts and programs:</p> <p>1) Segmentation.zip contains the scripts and executables for the segmentation program.</p> <p>2) Plankton_template.zip contains the archived version of the SparseConvNet program used in manuscript (current version available at: https://github.com/btgraham/SparseConvNet or https://github.com/facebookresearch/SparseConvNet)<br> Note that google-sparsehash is necessary for running SparseConvNet.<br> Also, plankton_epoch-150.cnn are the weights from the training used in the manuscript, and should be placed in the /weights folder if you want to replicate the classifications.</p>
[Dataset] Analysis of ego-networks of two CS-related Twitter accounts
<p><strong>Explanation/Overview:</strong></p> <p>This is the dataset for the analyses and results on Twitter Ego-Networks of two CS-related accounts (<a href="https://twitter.com/EuCitSci">@EuCitSci</a> & <a href="https://twitter.com/SciStarter">@SciStarter</a>). The username have been anonymised.</p> <p><strong>Purpose:</strong></p> <p>The purpose of this dataset is to provide the basis to reproduce the results reported in the associated deliverable. As such, it <strong>does not</strong> represent <strong>raw data</strong>, but rather files that already include certain analysis steps (like calculated degrees or other SNA-related measures), ready for analysis, visualisation and interpretation with R or any other network visualisation software (e.g., Gephi). The edges represent the follow relation and were retrieved using the Twitter API. All usernames except those of the two ego-accounts were anonymised by assigning a random number to each node. Due to the size of the network, we do not include any <code>.gexf </code>or <code>.gml </code>files in this upload, but rather resort to node and edge lists in the <code>.json</code> format</p> <p><strong>Relatedness:</strong></p> <p>The networks are the ego-networks for two related public accounts that are associated with citizen science (<a href="https://twitter.com/EuCitSci">@EuCitSci</a> & <a href="https://twitter.com/SciStarter">@SciStarter</a>).</p> <p><strong>Content:</strong></p> <p>In this Zenodo entry, two files can be found.</p> <ul> <li><code>edges.json</code></li> </ul> <p>Represents the edge list, with the columns:</p> <table> <tbody> <tr> <td><code>source</code></td> <td><code>target</code></td> <td><code>wherefrom</code></td> <td><code>account</code></td> </tr> <tr> <td>EuCitSci</td> <td>23929</td> <td>friendslist</td> <td>EuCitSci</td> </tr> </tbody> </table> <p><code>Source</code> and <code>target</code> are the necessary columns for the network creation and in this example indicate that EuCitSci follows 23929. <code>wherefrom </code>indicates the origin of this relation in the crawling (i.e., whether it was retrieved using the friends or follower list) and <code>account </code>indicates the ego-account it belongs to. Thus, the edges can also be separated using this <code>account </code>attribute as they represent two distinct networks.</p> <ul> <li><code>nodes.json</code></li> </ul> <p>Represents the nodes in the networks. The following data fields are contained:</p> <table> <tbody> <tr> <td><code>username</code></td> <td><code>CS</code></td> <td><code>followers_count</code></td> <td><code>friends_count</code></td> <td>...</td> </tr> <tr> <td>1116</td> <td>CS</td> <td>689</td> <td>514</td> <td>...</td> </tr> </tbody> </table> <table> <tbody> <tr> <td>...</td> <td><code>favourites_count</code></td> <td><code>listed_count</code></td> <td><code>statuses_count</code></td> <td>...</td> </tr> <tr> <td>...</td> <td>2601</td> <td>18</td> <td>2141</td> <td>...</td> </tr> </tbody> </table> <table> <tbody> <tr> <td>...</td> <td><code>degree</code></td> <td><code>in_degree</code></td> <td><code>out_degree</code></td> <td>...</td> </tr> <tr> <td>...</td> <td>21</td> <td>5</td> <td>16</td> <td>...</td> </tr> </tbody> </table> <table> <tbody> <tr> <td>...</td> <td><code>reciprocity</code></td> <td><code>account</code></td> </tr> <tr> <td>...</td> <td>0.48</td> <td>EuCitSci</td> </tr> </tbody> </table> <p> </p> <p><code>Username </code>represents the numerical and anonymised username, <code>CS</code> the community-membership. The different counts (e.g., <code>followers_count</code>) indicate the number of followers the user had at the time of the retrieval by the Twitter API. <code>degree</code> refers to the degree in the network (similarly the <code>in-</code> and <code>out_degree</code>), while <code>reciprocity</code> refers to the number of mutual edges in respect to the total number of edges per node (see <a href="https://networkx.org/documentation/stable/reference/algorithms/generated/networkx.algorithms.reciprocity.reciprocity.html">here</a>). <code>Account</code> is similar as described above.</p> <p> </p> <p><strong>Grouping:</strong></p> <p>The data is grouped according the ego-account it is associated to, as can be read above (i.e., the <code>account</code> attribute).</p>
Don't put all your eggs in one leaf-roll: a network analysis of candy-striped spider leaf preferences for egg deposition
<p>"Enoplognatha leaf choice.R" - R script for all analyses and figures for the manuscript.</p> <p>"Enop_LeafENNR_EnopChoice.csv" - Interaction matrix showing the leaves selected by each individual candy-striped spider.</p> <p>"Enop_LeafENNR_PlantComm.csv" - Proportional plant community composition in each quadrat within which candy-striped spiders were found.</p> <p>"Enop_LeafTSENNR_EnopChoice.csv" - Interaction matrix showing the tropho-species selected by each individual candy-striped spider.</p> <p>"Enop_LeafENNR_PlantComm.csv" - Proportional plant tropho-species community composition in each quadrat within which candy-striped spiders were found.</p> <p>"Enop_SNRENNR_EnopChoice.csv" - Interaction matrix showing the semi-natural habitats selected by each individual candy-striped spider.</p> <p>"Enop_SNRENNR_SNRs.csv" - Matrix equally representing the semi-natural habitats as the number of quadrats surveyed in each.</p> <p>"Leaf traits.csv" - The leaf trait data used to cluster leaves into tropho-species.</p> <p>"leaf.incidence.csv" - The number of candy-striped spiders that interacted with each plant species for assessment of interaction diversity and completeness.</p> <p>"Site Map.csv" - Latitude and longitude of the ten sampling sites used in this study.</p> <p>"TS plotting order.csv" - A file used to set the plotting order of tropho-species in a bipartite plot.</p>
Fungal Network Analysis - Dataset
<p>Images of fungal mycelia from basidiomycetes, ascomycetes and zygomycetes with associated parameter files for processing using the Fungal Network Analysis software available from DOI: <a href="https://doi.org/10.5281/zenodo.5187932">10.5281/zenodo.5187932</a>.</p> <p>Please cite:</p> <p>Aguilar-Trigueros, C.A., Boddy, L., Rillig, M.C. and Fricker, M.D. (2022) Network traits predict ecological strategies in fungi. <em>ISME Communications.</em> <strong>2, </strong>2</p> <p>https://doi.org/10.1038/s43705-021-00085-1</p>
Supporting Dataset for the Analysis on TSO-DSOs Cooperation and Stable Cost Allocation for the Joint Procurement of Flexibility (Network and Bid List)
<p>The data provides supporting material for the two case studies in Chapter 5 of CoordiNet D6.2 (the deliverable is available at <a href="https://coordinet-project.eu/publications/deliverables">https://coordinet-project.eu/publications/deliverables</a>) and the two case studies in paper on TSO-DSO cooperation (available at <a href="https://arxiv.org/abs/2111.12830">https://arxiv.org/abs/2111.12830</a>).</p> <p>The dataset is cooresponding to two case studies. In the first case study, the interconnected system consists of the IEEE 14-bus (TN) transmission network connected to three distribution networks: the Matpower systems 18-bus (DN_18), 69-bus (DN_69), and 141-bus (DN_141). The interface flow limit is TPmax. In the second case study, the interconnected system consists of the IEEE 14-bus (TN) transmission network connected to three Matpower systems 18-bus distribution networks, who are named as DN_1, DN_2, DN_3. </p> <p>All systems topology and some parameters are based on the corresponding cases in Matpower [1]. Base demand is adapted from the case, while base generation profiles are added to all nodes. All distribution systems are balanced, and the transmission system is imbalanced. Thermal limits of the lines are adapted in order to create congestion in the systems. Each distribution system is connected to the transmission system through one line. The interconnected system is fully represented in "Network_XXX.xlsx", in which:</p> <ul> <li>System: transmission (TN) or distribution (DN_XXX);</li> <li>LineID: ID of the lines;</li> <li>BusNumber: number of the nodes within the systems. This parameter is used to define the lines (from/to);</li> <li>BaseDemand and BaseSupply: base active demand and generation of each node;</li> <li>ConnectedDN: distribution system to which the transmission system node is connected to. If blank, the node is not connected to any distribution system. Only for the transmission system;</li> <li>InterfaceCapacity: thermal limit of the interface between the transmission and distribution systems;</li> <li>ThermalLimit: thermal limit of the transmission/distribution systems lines. For distribution systems, a value of 10 indicates that the line has no limit; </li> <li>SFTN: shift factor matrix of the transmission system. Capture the change in the active power flow over a line due to a change in injection or offtake at a node;</li> <li>BaseReactiveDemand and BaseReactiveSupply: base reactive demand and generation at each node. Only for distribution systems;</li> <li>VoltageLB and VoltageUB: lower and upper limits for the magnitude squared of the voltage in each distribution system node. Only for distribution systems;</li> <li>ConnectedTN: identify if the distribution node is connected or not to the transmission system. Only for distribution systems;</li> <li>ResistanceR: resistence of the distribution system lines. Only for distribution systems;</li> <li>ReactanceX: reactance of the distribution system lines. Only for distribution systems.</li> </ul> <p>Flexibility bids are randomly generated in the different nodes. For downward flexibility bids, the prices are drawn from the uniform distribution in the range 10 to 15, and for upward flexibility bids, they are drawn from the range 50 to 55. The bids maximum quantities are generated according to the base demand or supply of the node from which they are connected.. The generated orderbook is presented in "OrderbookTN_XXX.xlsx" (transmission system) and "OrderbookDN_XXX.xlsx" (distribution systems):</p> <ul> <li>OrderID: the ID of the order, to make each order unique;</li> <li>System: the system (TN, DN_XXX) from which the order is offered;</li> <li>BusNumber: the node from which the order is offered;</li> <li>FlexibilitySense: UPWARD for increase in generation or decrease in demand; DOWNWARD for increase in demand or decrease in generation;</li> <li>Price: the submitted order price;</li> <li>Quantity: the maximum quantities of the order.</li> </ul> <p>Source of the systems' topology:</p> <p>[1] R. D. Zimmerman, C. E. Murillo-Sanchez, and R. J. Thomas, “Mat-power: Steady-state operations, planning, and analysis tools for power systems research and education,” IEEE Transactions on power systems, vol. 26, no. 1, pp. 12–19, 2010.</p> <p>Please notice that this dataset does not replace the information provided by Matpower related to the aforementioned systems. It rather uses those systems topology and some of their parameters to build a case study to investigate TSO-DSO coordination market models for the procurement of flexibility. For the full description of these systems, please visit: <a href="https://matpower.org/">MATPOWER – Free, open-source tools for electric power system simulation and optimization</a>.</p>
Datasets and results of the paper titled "Are citation networks relevant to explain academic promotions? An empirical analysis of the Italian national scientific qualification"
<p>These are the <strong>input datasets</strong> and the <strong>results of the analyses</strong> reported on the paper titled <strong>"Are citation networks relevant to explain academic promotions? An empirical analysis of the Italian national scientific qualification"</strong>.</p> <p><strong>Abstract:</strong> </p> <p>The aim of this paper is to study the role of citation network measures in the assessment of scientific maturity. Referring to the case of the Italian national scientific qualification (ASN), we investigate if there is a relationship between citation network indices and the results of the researchers’ evaluation procedures. In particular, we want to understand if network measures can enhance the prediction accuracy of the results of the evaluation procedures beyond basic performance indices. Moreover, we want to highlight which citation network indices prove to be more relevant in explaining the ASN results, and if quantitative indices used in the citation-based disciplines assessment can replace the citation network measures in non-citation-based disciplines. Data concerning Statistics and Computer Science disciplines are collected from different sources (ASN, Italian Ministry of University and Research, and Scopus) and processed in order to calculate the citation-based measures used in this study. Following, we apply classification models to estimate the effects of network variables. We find that network measures are strongly related to the results of the ASN and significantly improve the explanatory power of the models, especially for the research fields of Statistics. Additionally, citation networks in the specific sub-disciplines are far more relevant than those in the general disciplines. Finally, results show that the citation network measures are not a substitute of the citation-based bibliometric indices.</p> <p><strong>Code</strong></p> <p>The code to collect and process the data used in this paper is available on GitHub at <a href="https://github.com/DigitalDataLab/ASN16-18_CitationNetwork">https://github.com/DigitalDataLab/ASN16-18_CitationNetwork</a><strong>.</strong> </p> <p><strong>Dataset description</strong></p> <p>The files <strong>AdjacencyMatrix_01B1.csv</strong>, <strong>AdjacencyMatrix_09H1.csv</strong>, <strong>AdjacencyMatrix_13D1.csv</strong>, <strong>AdjacencyMatrix_13D2.csv</strong> and <strong>AdjacencyMatrix_13D3.csv</strong> are the citation matrices for Italian academics (i.e. ASN candidates and permanent positions in the Italian academic system) in the Recruitment Fields (RFs) 01/B1, 09/H1, 13/D1, 13/D2 and 13/D3, respectively.</p> <p>The files <strong>AdjacencyMatrix_CS.csv</strong> and <strong>AdjacencyMatrix_ST.csv</strong> are the citation matrices for the Italian academics in the Computer Science disciplines (i.e. RFs 01/B1 and 09/H1) and the Statistical disciplines (i.e. RFs 13/D1, 13/D2 and 13/D3), respectively.</p> <p>The files <strong>CS_01B1_1.csv, CS_09H1_1.csv, ST_13D1_1.csv, ST_13D2_1.csv</strong> and <strong>ST_13D3_1.csv</strong> contain the data used to build the logistic regression models presented in the paper for the Italian academics at the Full Professor (FP) level.</p> <p>The files <strong>CS_01B1_2.csv, CS_09H1_2.csv, ST_13D1_2.csv, ST_13D2_2.csv</strong> and <strong>ST_13D3_2.csv</strong> contain the data used to build the logistic regression models presented in the paper for the Italian academics at the Associate Professor (AP) level.</p> <p>The file <strong>Codebook.pdf</strong> is the codebook of the previous ten files.</p> <p>The file <strong>Appendix.pdf</strong> contains the final results of the stepwise logistic regressions computed for each level (i.e. Full Professor and Associate Professor) and Recruitment Field in the Computer Science and Statistics disciplines.</p> <p>The file <strong>NormalityAssessment.pdf</strong> contains the normality assessment of citation network indices. </p>
nNPipe: A neural network pipeline for automated analysis of morphologically diverse catalyst systems - Resources
<p>This dataset comprises of resources required to replicate the results described in "<em>nNPipe</em>: A neural network pipeline for automated analysis of morphologically diverse catalyst systems". <em>nNPipe </em>is a deep learning based method in which two deep convolutional neural networks are used for the automated analysis of 2048x2048 HRTEM images.</p> <p>The file contains:<br> - Relevant experimental images as well as ground truth for Pd/C and Au/Ge systems.<br> - A workflow file explaining the nNPipe workflow.<br> - Mathematica 12.1 code for the generation of computational models.<br> - MATLAB code for HRTEM multislice simulations using MULTEM, as well as code required to form respective training datasets.<br> - Weights and files required for training the YOLOv5x module.<br> - Weights and files required for training the SegNet module.<br> - Mathematica 12.1 code required for reconstruction of 2048x2048 binary segmented maps of HRTEM images. </p>
Analysis of correlation-based biomolecular networks from different omics data by fitting stochastic block models
<p><strong>Baum_et_al_2019_Supplementary_Figures.pdf: </strong>Supplementary Figures S1-S4. Legends are included under each figure.</p> <p><strong>sbm-for-correlation-based-networks-master.zip: </strong>Archived source code of R and Python functions for the analyses and example workflow description at time of publication. Files are maintained at https://gitlab.com/biomodlih/sbm-for-correlation-based-networks and https://gitlab.com/kabaum/sbm-for-correlation-based-networks.</p>
Fed4Fire/CDN-X-ALL network metrics dataset for time series analysis in Media content delivery for 4G/5G networks
<p>The following dataset was generated at VICOMTECH (https://www.vicomtech.org) under project/experiment CDN-X-ALL: "CDN edge-cloud computing for efficient cache and reliable streaming aCROSS Aggregated unicast-multicast LinkS".</p> <p>Project funded by Fed4FIRE+ OC5 (<a href="https://www.fed4fire.eu/">https://www.fed4fire.eu</a>) under grant 732638.</p> <p>The dataset provides network metrics captures across several days employing a GStreamer-based MPEG-DASH player running on an UE connected to a LTE network.</p> <p>Nitos LTE/OpenAirInterface (OAI) testbed (<a href="https://nitlab.inf.uth.gr/NITlab/nitos/lte">https://nitlab.inf.uth.gr/NITlab/nitos/lte</a>) was used to deploy the LTE network.</p> <p><strong>CDN-like server/DASH Dataset -> Internet -> EPC/OAI -> eNodeB/OAI -> UE/DASH player</strong></p> <p>The player downloads MPEG-DASH video files provided by Distributed DASH dataset (<a href="https://dash.itec.aau.at/distributed-dash-datset/">https://dash.itec.aau.at/distributed-dash-datset/</a>), a dataset for CDN-like experiments, and captures the following data:</p> <ol> <li>Date: date when the data is collected</li> <li>Player: type of the player (in this case it is always "GStreamer")</li> <li>Num: identifier of the player</li> <li>URLVid: URL of the MPD file</li> <li>Latency: latency experienced by the player</li> <li>BW: bandwidth experienced by the player</li> <li>Quality: chosen DASH video representation</li> </ol> <p>During the experiments, other players run in order to generate realistic media streaming traffic at the CDN-like servers. These players start playing by following Poisson or Pareto distribution.</p> <p>The dataset was used to train Machine Learning Time Series predictor in order to forecast network capabilities and can be used for further experimentation concerning time series analysis.</p>
Neural Network and objective analysis reconstruction of 3D Mediterranean physical fields from surface satellite and in situ observations at 1/24 deg
<p>Daily Mediterranean 3D fields of temperature, salinity and geostrophic current at 1/24° of resolution, up to 150m-depth and from 2016 to mid 2022, obtained through a 3 steps approach: (1) Temperature and salinity 3D fields have been first estimated by a machine learning approach by using mediterranean reanalysis outputs (https://doi.org/10.25423/CMCC/MEDSEA_MULTIYEAR_PHY_006_004_E3R) together with satellite observations, (2) a combination of this first step with in situ observations through an Optimal interpolation to remove part of large scale biases, (3) the computation of geostrophic currents using the thermal wind equation. This work has been funded by the European Space Agency through the 4DMED-SEA project [ESA contract No. 4000141547/23/I-DT].</p>
An integrated approach including docking, MD simulations, and network analysis highlights the action mechanism of the cardiac hERG activator RPR260243
<p>500 ns MD trajectories of the hERG bound states (protein and ligand) used for the analyses discussed in the paper. There are three replica for each system. The trajectories can be visualized using molecular visualization programs such as Pymol or VMD uploading the PDB and the DCD file.</p> <p>The PDB and the topology files of the hERG bound state (protein, membrane, ions and ligand) are also included.</p> <p>An example of input file used for the production step of the dynamics has been provided (production_1.conf). </p>
Network traffic datasets created by Single Flow Time Series Analysis
<p><strong>Network traffic datasets created by Single Flow Time Series Analysis</strong></p> <p>Datasets were created for the paper: Network Traffic Classification based on Single Flow Time Series Analysis -- Josef Koumar, Karel Hynek, Tomáš Čejka -- which was published at The 19th International Conference on Network and Service Management (CNSM) 2023. Please cite usage of our datasets as:<br> </p> <blockquote> <p>J. Koumar, K. Hynek and T. Čejka, "Network Traffic Classification Based on Single Flow Time Series Analysis," <em>2023 19th International Conference on Network and Service Management (CNSM)</em>, Niagara Falls, ON, Canada, 2023, pp. 1-7, doi: 10.23919/CNSM59352.2023.10327876.</p> </blockquote> <p>This Zenodo repository contains 23 datasets created from 15 well-known published datasets which are cited in the table below. Each dataset contains 69 features created by Time Series Analysis of Single Flow Time Series. The detailed description of features from datasets is in the file: <em>feature_description.pdf</em></p> <p> </p> <p>In the following table is a description of each dataset file:</p> <table> <tbody> <tr> <td><strong>File name</strong></td> <td><strong>Detection problem</strong></td> <td><strong>Citation of original raw dataset</strong></td> </tr> <tr> <td>botnet_binary.csv </td> <td>Binary detection of botnet </td> <td>S. García et al. An Empirical Comparison of Botnet Detection Methods. Computers & Security, 45:100–123, 2014. </td> </tr> <tr> <td>botnet_multiclass.csv </td> <td>Multi-class classification of botnet </td> <td>S. García et al. An Empirical Comparison of Botnet Detection Methods. Computers & Security, 45:100–123, 2014. </td> </tr> <tr> <td>cryptomining_design.csv</td> <td>Binary detection of cryptomining; the design part </td> <td>Richard Plný et al. Datasets of Cryptomining Communication. Zenodo, October 2022 </td> </tr> <tr> <td>cryptomining_evaluation.csv </td> <td>Binary detection of cryptomining; the evaluation part </td> <td>Richard Plný et al. Datasets of Cryptomining Communication. Zenodo, October 2022 </td> </tr> <tr> <td>dns_malware.csv </td> <td>Binary detection of malware DNS </td> <td>Samaneh Mahdavifar et al. Classifying Malicious Domains using DNS Traffic Analysis. In DASC/PiCom/CBDCom/CyberSciTech 2021, pages 60–67. IEEE, 2021. </td> </tr> <tr> <td>doh_cic.csv </td> <td>Binary detection of DoH </td> <td> <p>Mohammadreza MontazeriShatoori et al. Detection of doh tunnels using time-series classification of encrypted traffic. In DASC/PiCom/CBDCom/CyberSciTech 2020, pages 63–70. IEEE, 2020 </p> </td> </tr> <tr> <td>doh_real_world.csv </td> <td>Binary detection of DoH </td> <td>Kamil Jeřábek et al. Collection of datasets with DNS over HTTPS traffic. Data in Brief, 42:108310, 2022 </td> </tr> <tr> <td>dos.csv </td> <td>Binary detection of DoS </td> <td>Nickolaos Koroniotis et al. Towards the development of realistic botnet dataset in the Internet of Things for network forensic analytics: Bot-IoT dataset. Future Gener. Comput. Syst., 100:779–796, 2019.</td> </tr> <tr> <td>edge_iiot_binary.csv </td> <td>Binary detection of IoT malware </td> <td>Mohamed Amine Ferrag et al. Edge-iiotset: A new comprehensive realistic cyber security dataset of iot and iiot applications: Centralized and federated learning, 2022.</td> </tr> <tr> <td>edge_iiot_multiclass.csv</td> <td>Multi-class classification of IoT malware</td> <td>Mohamed Amine Ferrag et al. Edge-iiotset: A new comprehensive realistic cyber security dataset of iot and iiot applications: Centralized and federated learning, 2022.</td> </tr> <tr> <td>https_brute_force.csv</td> <td>Binary detection of HTTPS Brute Force</td> <td>Jan Luxemburk et al. HTTPS Brute-force dataset with extended network flows, November 2020</td> </tr> <tr> <td>ids_cic_binary.csv</td> <td>Binary detection of intrusion in IDS</td> <td>Iman Sharafaldin et al. Toward generating a new intrusion detection dataset and intrusion traffic characterization. ICISSp, 1:108–116, 2018.</td> </tr> <tr> <td>ids_cic_multiclass.csv </td> <td>Multi-class classification of intrusion in IDS </td> <td>Iman Sharafaldin et al. Toward generating a new intrusion detection dataset and intrusion traffic characterization. ICISSp, 1:108–116, 2018. </td> </tr> <tr> <td>ids_unsw_nb_15_binary.csv </td> <td>Binary detection of intrusion in IDS </td> <td>Nour Moustafa and Jill Slay. Unsw-nb15: a comprehensive data set for network intrusion detection systems (unsw-nb15 network data set). In 2015 military communications and information systems conference (MilCIS), pages 1–6. IEEE, 2015.</td> </tr> <tr> <td>ids_unsw_nb_15_multiclass.csv </td> <td>Multi-class classification of intrusion in IDS </td> <td>Nour Moustafa and Jill Slay. Unsw-nb15: a comprehensive data set for network intrusion detection systems (unsw-nb15 network data set). In 2015 military communications and information systems conference (MilCIS), pages 1–6. IEEE, 2015.</td> </tr> <tr> <td>iot_23.csv </td> <td>Binary detection of IoT malware </td> <td>Sebastian Garcia et al. IoT-23: A labeled dataset with malicious and benign IoT network traffic, January 2020. More details here https://www.stratosphereips.org /datasets-iot23</td> </tr> <tr> <td>ton_iot_binary.csv </td> <td>Binary detection of IoT malware </td> <td>Nour Moustafa. A new distributed architecture for evaluating ai-based security systems at the edge: Network ton iot datasets. Sustainable Cities and Society, 72:102994, 2021</td> </tr> <tr> <td>ton_iot_multiclass.csv </td> <td>Multi-class classification of IoT malware </td> <td>Nour Moustafa. A new distributed architecture for evaluating ai-based security systems at the edge: Network ton iot datasets. Sustainable Cities and Society, 72:102994, 2021</td> </tr> <tr> <td>tor_binary.csv </td> <td>Binary detection of TOR </td> <td>Arash Habibi Lashkari et al. Characterization of Tor Traffic using Time based Features. In ICISSP 2017, pages 253–262. SciTePress, 2017. </td> </tr> <tr> <td>tor_multiclass.csv </td> <td>Multi-class classification of TOR </td> <td>Arash Habibi Lashkari et al. Characterization of Tor Traffic using Time based Features. In ICISSP 2017, pages 253–262. SciTePress, 2017. </td> </tr> <tr> <td>vpn_iscx_binary.csv </td> <td>Binary detection of VPN </td> <td>Gerard Draper-Gil et al. Characterization of Encrypted and VPN Traffic Using Time-related. In ICISSP, pages 407–414, 2016. </td> </tr> <tr> <td>vpn_iscx_multiclass.csv </td> <td>Multi-class classification of VPN </td> <td>Gerard Draper-Gil et al. Characterization of Encrypted and VPN Traffic Using Time-related. In ICISSP, pages 407–414, 2016. </td> </tr> <tr> <td>vpn_vnat_binary.csv </td> <td>Binary detection of VPN </td> <td>Steven Jorgensen et al. Extensible Machine Learning for Encrypted Network Traffic Application Labeling via Uncertainty Quantification. CoRR, abs/2205.05628, 2022</td> </tr> <tr> <td>vpn_vnat_multiclass.csv</td> <td>Multi-class classification of VPN </td> <td>Steven Jorgensen et al. Extensible Machine Learning for Encrypted Network Traffic Application Labeling via Uncertainty Quantification. CoRR, abs/2205.05628, 2022</td> </tr> </tbody> </table> <p> </p>
Curated Research on Network Traffic Analysis
<p>With the NTA Database we aim to collect relevant information about the research in network traffic analysis conducted during the last years. To this end, we have curated related papers from journals and conferences and stored the extracted data in JSON files. </p>
Network analysis reflects the trophic relationship between microbial colonizers and deadwood resources - supporting information
<p>Supporting tables S2 - S5 of "Network analysis reflects the trophic relationship between microbial colonizers and deadwood resources".</p> <p>The file Table_Legends_S2-S5.txt contains all legends, as given below:</p> <p>Table S2: Module-associated trees and OTUs, their relative abundances and identities for the fungal sapwood network; module – name of the module, present – proportion of network version that the OTU is present in (1 = 1000/1000), inBestModule – proportion of the network versions where the OTU is associated with the respective module, percInBestModule – proportion of the network versions where the OTU is associated with the respective module provided that the OTU is part of the network (= inBestModule/present), meanAbundanceModuleSamples – mean relative abundance of the OTU in all samples belonging to the module, meanAbundanceOtherSamples – mean relative abundance of the OTU in all other samples, relAbundanceModuleSamplesVsOthers – meanAbundanceModuleSamples / meanAbundanceOtherSamples .</p> <p>Table S3: Module-associated trees and OTUs, their relative abundances and identities for the fungal heartwood network; module – name of the module, present – proportion of network version that the OTU is present in (1 = 1000/1000), inBestModule – proportion of the network versions where the OTU is associated with the respective module, percInBestModule – proportion of the network versions where the OTU is associated with the respective module provided that the OTU is part of the network (= inBestModule/present), meanAbundanceModuleSamples – mean relative abundance of the OTU in all samples belonging to the module, meanAbundanceOtherSamples – mean relative abundance of the OTU in all other samples, relAbundanceModuleSamplesVsOthers – meanAbundanceModuleSamples / meanAbundanceOtherSamples .</p> <p>Table S4: Module-associated trees and OTUs, their relative abundances and identities for the prokaryotic sapwood network; module – name of the module, present – proportion of network version that the OTU is present in (1 = 1000/1000), inBestModule – proportion of the network versions where the OTU is associated with the respective module, percInBestModule – proportion of the network versions where the OTU is associated with the respective module provided that the OTU is part of the network (= inBestModule/present), meanAbundanceModuleSamples – mean relative abundance of the OTU in all samples belonging to the module, meanAbundanceOtherSamples – mean relative abundance of the OTU in all other samples, relAbundanceModuleSamplesVsOthers – meanAbundanceModuleSamples / meanAbundanceOtherSamples .</p> <p>Table S5: Module-associated trees and OTUs, their relative abundances and identities for the prokaryotic heartwood network; module – name of the module, present – proportion of network version that the OTU is present in (1 = 1000/1000), inBestModule – proportion of the network versions where the OTU is associated with the respective module, percInBestModule – proportion of the network versions where the OTU is associated with the respective module provided that the OTU is part of the network (= inBestModule/present), meanAbundanceModuleSamples – mean relative abundance of the OTU in all samples belonging to the module, meanAbundanceOtherSamples – mean relative abundance of the OTU in all other samples, relAbundanceModuleSamplesVsOthers – meanAbundanceModuleSamples / meanAbundanceOtherSamples .</p>
Supplementary material: Prophylactic antibiotics for adults with chronic obstructive pulmonary disease: a network meta-analysis
<p>Supplementary material for Cochrane review: Janjua S , Mathioudakis AG , Fortescue R , Walker RAE , Sharif S , Threapleton CJD , Dias S . Prophylactic antibiotics for adults with chronic obstructive pulmonary disease: a network meta-analysis. Cochrane Database of Systematic Reviews 2021, Issue 1. Art. No.: <a href="https://archie.cochrane.org/sections/documents/CD013198">CD013198</a>. DOI: <a href="https://archie.cochrane.org/sections/documents/10.1002/14651858.CD013198.pub2">10.1002/14651858.CD013198.pub2</a>.</p>
A Hierarchical Network-Oriented Analysis of UserParticipation in Misinformation Spread on WhatsApp
<p>#Authors: Gabriel Peres Nobre, Carlos Henrique Gomes Ferreira, Jussara Marques de Almeida<br> #2021</p> <p>Script to read a Database file of messages and, in the end, extract user communities based on content co-sharing.</p> <p>We provide a database file with the anonymized messages shared in WhatsApp. </p>
Training material for small RNA-seq data analysis (Galaxy Training Network tutorial)
<p>The data provided here are part of a Galaxy Training Network tutorial that analyzes small RNA-seq (sRNA-seq) data from a study published by Harrington et al. (DOI:10.1186/s12864-017-3692-8) to detect differential abundance of various classes of endogenous short interfering RNAs (esiRNAs). The goal of this study was to investigate "connections between differential retroTn and hp-derived esiRNA processing and cellular location, and to investigate the potential link between mRNA 3’ end cleavage and esiRNA biogenesis." To this end, sRNA-seq libraries were constructed from triplicate <em>Drosophila</em> tissue culture samples under conditions of either control RNAi or RNAi knockdown of a factor involved in mRNA 3’ end processing, <em>Symplekin</em>. This dataset (GEO Accession: GSE82128) consists of single-end, size-selected, non-rRNA-depleted sRNA-seq libraries. Because of the long processing time for the large original files, we have downsampled the original raw data files to include only reads that align to a subset of interesting transcript features including: (1) transposable elements, (2) <em>Drosophila</em> piRNA clusters, (3) <em>Symplekin</em>, and (4) genes encoding mass spectrometry-defined protein binding partners of <em>Symplekin</em> from Additional File 2 in the indicated paper by Harrington et al. More details on features 1 and 2 can be found here: https://github.com/bowhan/piPipes/blob/master/common/dm3/genomic_features (piRNA_Cluster, Trn). All features are from the <em>Drosophila</em> genome Apr. 2006 (BDGP R5/<em>dm3</em>) release.</p>
Dataset and full R script used in the data analysis of the paper "Overlooked and undervalued: Peripheral pollinators in an urban network"
<p>Dataset and full R script used in the data analysis of the paper "<strong>Overlooked and undervalued: Peripheral pollinators in an urban network</strong>".</p> <p>Summary:</p> <p>Since insect pollinators are essential for their ecological and agricultural roles, their conservation should be a priority, particularly in the remnant green spaces within highly urbanised cities. To gain insight into the occurrence of interactions between plants and often overlooked pollinators, and into their requirements for persistence over time in urban green spaces, we studied flower visitor diversity associated with a remnant of native vegetation in Cordoba (Argentina), one of the largest cities in South America. We recorded 198 insect species from six orders (Hymenoptera, Diptera, Lepidoptera, Coleoptera, Thysanoptera, and Hemiptera) interacting with the flowers of 94 plant species. The plant-pollinator interaction network was significantly modular, with 178 pollinators playing a peripheral role (i.e., it has a few links inside its own module and rarely any to other modules). We focused on the life history traits of these peripheral pollinators, which are often neglected in ecological studies. We classified their requirements to complete the life cycle and to persist over time into three broad categories: floral rewards, places to reproduce, and additional resources for food and nests. The life cycle requirements of peripheral pollinators differ significantly across insect orders. Hymenoptera and Lepidoptera have distinct life history requirements while Diptera and Coleoptera overlap in resource use. The three life history categories highlight how pollinators displayed different foraging behaviour, reproductive strategies of immature and adult stages, and the requirement of additional food resources used by larvae and adults beyond flower rewards to complete their life cycles. Knowledge about the requirements of neglected pollinators is a benchmark that can help to identify where efforts need to be made to conserve and maintain their biodiversity, even in small urban green spaces.</p>
Decoding host-microbiome interactions through co-expression network analysis within the non-human primate intestine
<p>Supplementary Table Captions:</p> <p>Supplementary Table S9. Evaluation and parameter determination of host and microbiome RNA read classification using simulation datasets</p> <p>Supplementary Table S10. 40 pathways significantly upregulated in the cecum as compared to the transverse colon</p> <p>Supplementary Table S11. Host-microbiome gene co-expression network edges</p> <p>Supplementary Table S12. Host-host gene co-expression network edges</p> <p>Supplementary Table S13. Microbiome-microbiome gene co-expression network edges</p> <p>Supplementary Table S14. List of genes included in each gene module identified from the gene co-expression network</p> <p>Supplementary Table S15. Results of enrichment analysis for each gene module identified from the gene co-expression network</p> <p>Supplementary Table S16. The top 32 bacterial species in terms of expression abundance based on metatranscriptome profiles</p> <p>Supplementary Table S17. Number of microbiome RNA reads annotated by the KEGG database</p> <p>Supplementary Table S18. Results of enrichment analysis of gene modules for each parameter</p> <p>Supplementary Table S19. Evaluation of modules in each parameter of Newman algorithm</p> <p>Supplementary Table S20. Evaluation of modules in each parameter of Louvain algorithm</p> <p>Supplementary Table S21. Evaluation of modules in each parameter of Leiden algorithm</p> <p>Supplementary Table S22. Evaluation of modules in each parameter of WGCNA</p>
Temporal Analysis of Knowledge Networks
<p>This dataset contains 64 topic networks extracted from the English Wikipedia's internal link network. Every topic network contains 19 snapshots, which are taken on March 1st of each year from 2002 to 2020. More detailed information are available at: https://github.com/XikunHuang/TAKN.</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.