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"Clade L": this is a rather odd taxon! #252

Closed hyanwong closed 6 months ago

hyanwong commented 8 years ago

This presumably needs either expanding or deleting

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URL tree.opentreeoflife.org/opentree/argus/ottol@5247662/Clade-L
Target node label Clade L
Synthetic tree id opentree5.0
Synthetic tree node id ott5247662
Source tree id(s)
Open Tree Taxonomy id
Supporting reference n/a
jar398 commented 8 years ago

Indeed. If you want further information you will probably have to contact the SILVA team, since the SILVA distribution provides no metadata on higher level taxa. Pelin Yilmaz in particular is (or was) the main SILVA taxonomy curator and would know where the name comes from. She may have given it that name, or she may have found it in some publication.

hyanwong commented 8 years ago

I was more querying the lack of child taxa - but they may have been removed from the tree for some reason.

jar398 commented 8 years ago

Follow the SILVA link from the tree browser to see what's supposed to be in there. I agree that the lack of children is a problem. We're hoping to include a lot more SILVA clusters in the future. All of them are potentially good OTUs for integration since any sample used as an OTU in a phylogenetic study might be placed in any cluster by sequence similarity.

jar398 commented 8 years ago

Probably another case of https://github.com/OpenTreeOfLife/peyotl/issues/151 - let's see what it looks like in next synthesis.

hyanwong commented 4 years ago

Still in 12.3 (https://nexttree.opentreeoflife.org/opentree/argus/ottol@5247662/Clade-L) but this is a very minor issue

mtholder commented 6 months ago

will be fixed with https://github.com/OpenTreeOfLife/edOTTs/commit/ff01b28a993d85731219bdb8614c34a32cac14ea