turbomam
commented
11 months ago @cmungall what kind of priority would you like to give this?
Who else should I check wiht?
Open cmungall opened 3 years ago
turbomam
commented
11 months ago @cmungall what kind of priority would you like to give this?
Who else should I check wiht?
the goal is to provide a lightweight alignment between qiime and the NMDC schema. This could be encoded either in mappings in the schema, or simply in comments
Some initial rough notes:
https://qiita.ucsd.edu/static/doc/html/qiita-philosophy/index.html
https://qiita.ucsd.edu/static/doc/html/gettingstartedguide/index.html
As described in Qiita Philosophy, a Qiita study can have many biological samples, each with many preparations for different kinds of multi-omic analysis. Thus, the study will have a single sample information file that will define the biological context of each sample. Each multi-omic data type prepared will have a separate preparation information file that will describe the sequencing technology or analytical chemistry used to generate that data set.
_Please note that while sample information and preparation information files are similar to a QIIME metadata file, they are conceptually different. A QIIME metadata file includes information about the biological context, like sampletype, and about the wet lab processing, like BarcodeSequence. Qiita intentionally separates this information into two separate files; it would be conceptually incorrect to include BarcodeSequence (barcode) with the sample information, as this information pertains to the wet lab preparation and should be placed in the preparation information file.
We have discussed this a lot and we have to deal with different omics processing, can we better document how we do this in the schema, with examples
E.g. https://data.microbiomedata.org/details/sample/gold:Gb0126455 -- this is the sample Gp0127654, emsl:500100 -- sample preps?
more notes to follow...