Process 44 lipidomics datasets for nmdc:sty-11-8ws97026 (PI Blanchard)

[kheal]

Deliverable this task is associated with

Processed datasets for lipidomics datasets for nmdc:sty-11-8ws97026

RACI

Tag people in their roles

• Responsible: @kheal
• Accountable: @lamccue
• Consulted: @corilo @sanjaypjana
• Informed: @aclum @lamccue

Describe the the task

• Process raw data for lipidomics datasets on MetaMS's lipidomics workflow (nmdc:sty-11-8ws97026)
• Load raw data to minio (nmdc:sty-11-8ws97026 lipid data)
• Load processed data to minio (nmdc:sty-11-8ws97026 lipid data)
• Generate and submit metadata for nmdc:sty-11-8ws97026 lipid datasets (DataGeneration through processed DataObjects)

See mapping on this ticket.

Criteria for completion

• 44 documents in mongo prod in data_generation_set with a filter of {"associated_studies":"nmdc:sty-11-8ws97026","analyte_category":"lipidome"} - 22 for each positive and negative polarity.
• associated data objects also in mongo

Estimate people time

• 1 person, 8 hours

Completion Date (Goal)

• Dec 20, 2024

Target Sprint Start & End Dates

• Start: Dec 16
• End: Dec 20

Tag Blocker/Contingent upon issues

• Generation of metadata is dependent on Curate metadata mapping for lipidomics data for nmdc:sty-11-aygzgv51, nmdc:sty-11-dcqce727, and nmdc:sty-11-8ws97026 #957
• Processing of raw data is dependent on Add lipidomics workflow to MetaMS (cli, wdl) metaMS#32

[kheal]

minio location: https://admin.nmdcdemo.emsl.pnl.gov/minio/lipidomics/blanchard_11_8ws97026/