Code

Ag-866/Ag-1227 Process SRM DE data#90

Code

Merged

JessterB merged 11 commits intodevSage-Bionetworks/agora-data-tools:devfrom AG-866_reprocess_srm_dataSage-Bionetworks/agora-data-tools:AG-866_reprocess_srm_dataCopy head branch name to clipboardNov 3, 2023

+1,078-2

Commits

Commits on Jan 9, 2023

• Added draft notebook to reprocess SRM data and add Ensembl IDs to it

  jaclynbeck-sage

  committed
  d7f9688

Commits on Jan 13, 2023

• Renamed SRM processing file to clarify it's for correlation data

  jaclynbeck-sage

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  0a91005

• Added notebook to process SRM differential expression data for ingest into Agora

  jaclynbeck-sage

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  f16f97c

Commits on Jun 2, 2023

• Merged dev into this branch to pick up all the recent changes to the pipeline

  jaclynbeck-sage

  committed
  2d53ba5

Commits on Sep 29, 2023

• Merge branch 'dev' of github.com:Sage-Bionetworks/agora-data-tools into AG-866_reprocess_srm_data

  jaclynbeck-sage

  committed
  6df2a4d

Commits on Sep 30, 2023

• Updated SRM DE processing script for newest ADT changes, added SRM DE data to gene_info, proteomics, and proteomics_distribution transforms

  jaclynbeck-sage

  committed
  61cb0c7

• Removed SRM correlation notebook from this branch to put in a different branch

  jaclynbeck-sage

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  7f2a300

Commits on Nov 1, 2023

• Rewrite of SRM differential expression notebook to get confidence in

  Show description for 425c00a
  jaclynbeck-sage

  committed
  425c00a

• Removed reliance on a locally downloaded file for UniProt mapping, and instead added the mapping file to Synapse

  jaclynbeck-sage

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  620c094

Commits on Nov 2, 2023

• Increased the version of SRM data in the config files to version 3

  jaclynbeck-sage

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  72cfdb5

Commits on Nov 3, 2023

• Added SRM data to proteomics distribution data testing

  jaclynbeck-sage

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  38697f3