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The command line has been developed for individual components (`cmine`, `norma`, `ami`) rather than a complete commandline for chaining these together. We have shown that they can be chained in `org.x…
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- need to be able to export character data + character sets
- need to be able to export Taxa in other formats, especially TSV
- need to be able to export document-level metadata, e.g. as TSV or JSON
rvosa updated
10 years ago
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Currently, many variables are defined in template.xsl. This stylesheet should only be imported once, in nexml-isatab.xsl. But for debugging assay.xsl, investigation.xsl, and study.xsl, it's convenie…
eah13 updated
12 years ago
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I recently downloaded Phenex to start annotating beetle matrices with ontology terms.
When trying to use it, it starts loading until I get this message:
"An error occurred while loading ontologies:…
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I created this Github organization as a suggestion for how we could consolidate some of the currently quite disparate resources that originated under the [EvoIO](http://evoio.org) umbrella. There are …
hlapp updated
7 years ago
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As per @rvosa's comment on rOpenSci/RNeXML#48, ordering of matrix columns (and probably also rows, i.e., OTUs) is currently defined by convention as the order in which the elements appear in the input…
hlapp updated
10 years ago
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Given a tree, with:
- tips (at minimum) mapped to ott ids, and
- data records associated with (some) internal nodes
Produce a set of annotations consistent with that tree.
One test case here is to …
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One thing I just thought of while trying to describe the proposed tag to the NeXML team: if you look at Mike’s translation of the original TSS spec (https://github.com/OpenTreeOfLife/phylostylotastic…
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**Organizational Page**: [MetaSemantics](https://github.com/NCEAS/open-science-codefest/wiki/MetaSemantics)
**Category**: Data Science
**Title:** Techniques for adding semantics to your metadata
**Pr…
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From @rvosa:
> Imagine if we encoded the entire treebase nexml dump to JSON-LD, what could we do? If we also ingested the NCBI taxonomy, we could map between it and the tips of treebase trees (to t…