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ShareScore release 0.9.0
Dataset results
94 results for “Training Materials”
Galaxy Training Material - Peak detection with recetox-aplcms
<p>This dataset contains the training data for the recetox-aplcms GTN Tutorial. It includes 3 LC-ESI+-HRMS DDA files containing a mixture of pesticides and 3 GC-EI+-HRMS files from seminal plasma samples.</p>
SSHOC Training Material Video 1 - What is the Ethnic and Migrant Minorities Survey Registry? - training video in English, French and Spanish
<p>A generic video, like the one produced about the SSH Marketplace, clearly and succinctly introducing and presenting the EMM Survey Registry. Would serve as an introductory video to train any new user on what the EMM Survey Registry is and who this tool is for. Would also present all available resources about the Registry (so introducing the full set of training materials available about the Registry)</p> <p>This has been produced in English, French, Spanish</p>
Training data for 'Refining Manual Genome Annotations with Apollo (eukaryotes)' tutorial (Galaxy Training Material)
<p>The data provided here are part of a Galaxy Training Network tutorial for manual curation of eukaryotic genome annotation using Apollo.</p>
Training material for Genome assembly quality control (Galaxy Training Network tutorial)
<p>This Zenodo repository includes the required datasets for following the GTN: Genome assembly quality control.</p>
Data from: Crowdsourcing training material for automated bird sound classification – a pilot study
<p>Data from the manuscript "Crowdsourcing training material for automated bird sound classification – a pilot study" by Petteri Lehikoinen, Meeri Rannisto, Ulisses Camargo, Aki Aintila, Patrik Lauha, Esko Piirainen, Panu Somervuo & Otso Ovaskainen</p>
Training data for 'Repeat masking with RepeatMasker' tutorial (Galaxy Training Material)
<p>Data needed for the 'Repeat masking with RepeatMasker' tutorial (Galaxy Training Material).</p> <p>The assembly was generated following the 'Genome assembly using PacBio data' tutorial</p>
SSHOC Training Material Video 3 - Contributing metadata to the COVID-19 collection of the Ethnic and Migrant Minorities (EMM) Survey Registry as a data producer - training video in English, French and Spanish
<p>Contributing metadata to the COVID-19 collection of the Ethnic and Migrant Minorities (EMM) Survey Registry as a data producer</p> <p>A training video targeting COVID-19 survey producers to entice contributions to the COVID-19 collection of the EMM Survey Registry<br> <strong>Target Audience for the video</strong>: Survey producers (academic and non-academic) of COVID-19 surveys with EMM respondents</p>
SSHOC Training Material Video 2 - How to exploit the Ethnic and Migrant Minorities Survey Registry as an academic and non-academic user - training video in English, French and Spanish
<p>A training video about how to search for and learn about surveys using the EMM Survey Registry, both as an academic and non-academic user.</p> <p>This video has been produced in English, French, Spanish</p>
Training data for ChIP-seq data analysis (Galaxy Training Material): Identification of the binding sites of the Estrogen receptor
<p>The data provided here are part of a Galaxy Training Network tutorial that analyzes ChIP-seq data from a study published by Ross-Inness et al., 2012 (DOI:10.1038/nature10730) to identify the binding sites of the Estrogen receptor, a transcription factor known to be associated with different types of breast cancer.</p>
Training data for 'From peaks to gene' tutorial (Galaxy Training Material)
<p>The data provided here are part of a Galaxy Training Network tutorial that analyzes peaks from a study published by Li et al., 2012 (DOI:10.1016/j.stem.2012.04.023) to identify target genes</p>
Training data for 'Reference based RADSeq ' tutorial (Galaxy Training Material)
<p>The data provided here are part of a Galaxy Training Network tutorial that analyzes RAD-seq data from a study published by Hohelnlohe et al., 2010 (DOI:10.1371/journal.pgen.1000862) to identify and type single nucleotide polymorphisms (SNPs) in each of 100 individuals from two oceanic and three freshwater populations and thus estimate genetic diversity and differentiation among populations. </p>
Training data for 'Long non-coding RNAs (lncRNAs) annotation with FEELnc' tutorial (Galaxy Training Material)
<p>Data needed for the 'Long non-coding RNAs (lncRNAs) annotation with FEELnc' tutorial (Galaxy Training Material).<br>The assembly was generated following the 'Genome assembly using PacBio data' tutorial.<br>The annotation was generated following the 'Genome annotation with Funannotate ' tutorial.</p> <p>The bam file is RNASeq SRR8534859_1.fastq.gz and SRR8534859_2.fastq.gz mapping on the genome assembly.</p>
Data for Galaxy CLIP-Seq Training Material
<p>The eCLIP data provided here is a subset of the eCLIP data of RBFOX2 from a study published by Nostrand et al. (2016, http://dx.doi.org/10.1038/nmeth.3810). The dataset contains the first biological replicate of RBFOX2 CLIP-seq and the input control experiment (*fastq files). The data was changed and downsampled to reduce data processing time, thus the datasets does not correspond to the original data pulled from Nostrand et al. (2016, http://dx.doi.org/10.1038/nmeth.3810). Also included is a text file (.txt) encompassing the chromosome sizes of hg19 and hg38 obtained from UCSC (http://hgdownload.cse.ucsc.edu/goldenPath/hg19/bigZips/hg19.chrom.sizes, http://hgdownload.cse.ucsc.edu/goldenPath/hg38/bigZips/hg38.chrom.sizes) and a genome annotation for hg19 (.gtf) taken from Ensembl (http://ftp.ensemblorg.ebi.ac.uk/pub/release-74/gtf/homo_sapiens/) and for hg38 taken from the Galaxy libraries (https://usegalaxy.eu/library/list#folders/F30cab321d898d2fb/datasets/9ba790aa79c9cf23). The data is used for a galaxy training course about CLIP-Seq data analysis. </p>
Training data for 'Somatic variant calling' tutorial (Galaxy Training Material)
<p>The data provided here are part of a Galaxy Training Network tutorial that demonstrates identification of somatic and germline variants from tumor and normal sample pairs.</p>
Training Materials and Guidelines
<p>Document collecting information about Eco-Binder project results including concrete, finishing materials and EcoBinder tool</p>
Training material for the course "Exome analysis with GALAXY"
<p>Galaxy is an open source, web-based platform for data intensive biomedical research. It makes accessible bioinformatics applications to users lacking programming skills, enabling them to easily build analysis workflows for NGS data.<br /> <br /> The course "<strong>Exome analysis using Galaxy</strong>" is aimed at PhD student, biologists, clinicians and researchers who are analysing, or need to analyse in the near future, high throughput exome sequencing data. The aim of the course is to make participants familiarise with the Galaxy platform and prepare them to work independently, using state-of-the art tools for the analysis of exome sequencing data.</p> <p>The course will be delivered using a mixture of lectures and computer based hands-on practical sessions. Lectures will provide an up-to-date overview of the strategies for the analysis of exome next-generation experiments, starting from the raw sequence data. Analyses include sequence quality control, alignment to a reference genome, refinement of aligned sequences, variant calling, annotation and interpretation, and tools for visual inspection of results. Participants will apply the knowledge gained during the course to the analysis of Illumina’s real exome datasets, and implement workflows to reproduce the complete analysis. After the course, participants will be able to create pipeline for their individual analyses.</p> <p>Those are the needed datasets for this course.</p>
Training data for 'Genome annotation with Apollo' tutorial (Galaxy Training Material)
<p>Published scaffolds from the Apis mellifera assembly Amel_4.5 and Official Gene Set 3.2.</p> <p>Source: <a href="http://hymenopteragenome.org/beebase/?q=download_sequences">http://hymenopteragenome.org/beebase/?q=download_sequences</a></p>
SSHOC Training Material Video 6 - Contributing metadata to the Ethnic and Migrant Minorities (EMM) Survey Registry as a local/regional/national governmental department or EU agency/department or international organisation - training video in English, French and Spanish
<p>Contributing metadata to the Ethnic and Migrant Minorities (EMM) Survey Registry as a local/regional/national governmental department or EU agency/department or international organisation.</p> <p>A demo-based training video targeting statistical units in local/regional/national governmental departments to highlight why they should invest in and document their surveys on the EMM Survey Registry</p> <p><strong>Target Audience for the video: </strong>Statistical units in local/regional/national governmental departments producing quantitative surveys on ethnic and migrant minorities’ integration and/or inclusion</p>
Training material for the mapping and quantification of single-cell ATAC-seq 10X Datasets
<p>The data provided here is part of the Galaxy Training Network tutorial that analyses 10x genomics single-cell ATAC-seq data from the 10x platform. The original data is from 1k Peripheral Blood Mononuclear Cells (PBMCs) from a Healthy Donor.</p> <p>Due to time constraints during training, the datasets were subsampled to reads that map to chromosome 21 only.</p> <p>The 10x Genomics Datasets follow the <a href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution</a> license.</p> <p>There is an additional count matrix in Anndata format created from full datasets.</p>
LFY ChIP-SEQ analysis Galaxy Training Material
<p>Datasets for Galaxy Training on ChIP-SEQ analysis. Raw files can be downloaded from SRA project SRP051214</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.