Data · dataset · 2023
Simulated ancient metagenomic dataset enriched for microbial pathogens
Listed in Researchdata.se
This is a simulated ancient metagenomic dataset enriched for microbial pathogens.
Description
The dataset was used for replication of the benchmarking the anciemt microbiome profiling workflow aMeta against Heuristic Operations for Pathogen Screening (HOPS), see link under references. The dataset was simulated using gargammel software, see link under references.
Both ancient and modern reads were simulated, sequencing errors and Illumina adapters were added. The simulated datase was built by Nikolay Oskolkov, Lund University, Sweden, within the NBIS SciLifeLab long-term support project, PI Anders Götherström, Centre for Palaeogenetics, Stockholm, Sweden. Associated publication: Pochon et al. 2023. aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow.
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Genome Biology: doi.org/10.1186/s13059-023-03083-9 When using these databases or datasets, please cite the aMeta publication in addition to this Figshare item: Pochon et al. 2023. aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow. Genome Biology. doi.org/10.1186/s13059-023-03083-9
Links
Where it is published
- DOI doi.org/10.17044/scilifelab.24211584 ↗
DOI / persistent id · from researchdata se
Catalogue records · 1
- OAI-PMH record api.researchdata.se/oai-pmh?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3A… ↗
metadata API · from researchdata se
Topics
- From keywords
- Earth & Environmental Science · Life Sciences · Medicine & Health
- Inferred from text
- Sequencing 75%
Provenance · 1 source records, 9 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| Researchdata.se | oai:researchdata.se:doi-10-17044-scilifelab-24211584/0 | 12 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · researchdata se | connector:researchdata_se@1.0.0 | |
| concepts[modality].local:modality:sequencing | enrichment · researchdata se | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/description |
| license | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/rights |
| publication_date | source · researchdata se | connector:researchdata_se@1.0.0 | |
| title | source · researchdata se | connector:researchdata_se@1.0.0 | /metadata/dc/title |