Is there any way to load data into this newly released instance from the publicly available data held at http://library.transmartfoundation.org/datasets/?

#1

Is there any way to load data into this newly released instance from the publicly available data held at http://library.transmartfoundation.org/datasets/ ?

#2

That would be transmart datasets loaded into the transmart schema - clinical and mrna expression data. I can try that locally and see how it looks in transmartApp

#3

I tried to load a study (GSE1456 from Rancho). It failed with the "identifier 'I2B2_LOAD_CLINICAL_DATA ’ must be declared. This suggests there are some missing parts to the tranSMART database setup. Could be just synonyms. I will see what I can find.

#4

Looks like the sroted procedures are not loaded, so Kettle ETLs will not work. Maybe transmart_batch has a better chance.

#5

Good day. We are trying to load some clinical data (visit, demographics etc.) into the new tranSMART 18.1 beta version docker installation. Can someone please guide how to do that or any documentation available for clinical data load in the latest version 18.1?

We are following the documentation for tMDataLoader for an earlier version 16.2 available at this link https://github.com/Clarivate-LSPS/tMDataLoader/wiki . But the steps are not working for version 18.1.

Any help is much appreciated.

#6

HI all, 18.1 is a new schema, a new loading mechanism is coming soon
see: