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public repo for issues related to NMDC work
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Milestone - Include updated and new multi-omics workflows to be available in NMDC EDGE (5.4) #491

Open ssarrafan opened 10 months ago

ssarrafan commented 10 months ago

Enhanced, improved and novel NMDC workflows to advance microbiome science Similar to the entire field of genomics, all NMDC workflows (Appendix 15) are subject to an iterative improvement process. To stay relevant to the scientific community, the NMDC must be able to keep up with advancements in bioinformatics. Major leaps in bioinformatic algorithms occasionally force a wholesale re-evaluation of previously processed data. The ongoing expansion of taxonomic and functional knowledge can also result in older analyses needing to be refreshed. When a new component of the workflow is updated (an algorithm/tool or a queried database), the NMDC works with the upstream workflow developers (e.g., JGI, EMSL, and LANL) to determine next steps. This could include deciding whether there is a need for the NDMC workflow to adopt the latest version and if so, whether application of the updated workflow on previously processed data is necessary and whether an update to the workflow output data schema is necessary (see Governance, Milestone 0.4). We anticipate several enhancements and improvements to existing workflows, as well as new workflows, to be developed and integrated as standardized NMDC workflows (Milestone 2.12 - 2.21), and will be integrated within NMDC EDGE (NMDC EDGE, Milestone 5.4...

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ssarrafan commented 7 months ago

Rescheduled to Q3 per the milestones spreadsheet.

ssarrafan commented 4 months ago

@mflynn-lanl @patrickchain just a heads up that we need to report on this and close it by June for the next DOE report.

ssarrafan commented 3 weeks ago

@patrickchain @mflynn-lanl what's the status of this milestone? It's delayed and we need to report on the status please. Thank you! @emileyfadrosh