Releases · Sage-Bionetworks/agora-data-tools

What's Changed

AG-992: Update dataset & filename: biodomains -> genes_biodomains by @JessterB in #53

Ag-935 rna distribution updates by @jaclynbeck-sage in #54

Fixed logic for determining if rna or protein was changed in AD by @jaclynbeck-sage in #55

[IBCDPE-394] NumpyEncoder Tests by @BWMac in #57

Created eQTL preprocessing script to update eQTL data with Solly's data by @jaclynbeck-sage in #58

Added n_terms and enrichment_pct calculations to biodomains output by @jaclynbeck-sage in #56

[AG-1017] test data workflow name change by @BWMac in #59

[AG-809] Synapse Upload Versions by @BWMac in #60

[AG-1016] CI pipeline should indicate failure when file upload fails by @BWMac in #62

AG-995: Update wiki IDs to new versions for scores update by @JessterB in #64

[IBCDPE-409] Implement agora-data-tools CLI by @BWMac in #66

What's Changed

Refactoring of the gene_info dataset by @mfazza in #1
Data Release 2.5.0 by @mfazza in #2
Adding dynamic login by @mfazza in #3
adding testing file by @mfazza in #4
AG-500: adding documentation by @mfazza in #5
AG-621 by @mfazza in #6
AG-500 by @mfazza in #7
2.6.5 by @mfazza in #8
AG-500: found a problem with overall scores by @mfazza in #9
Ag 557 by @mfazza in #10
AG-605 by @mfazza in #11
AG-560 and AG-557: TMT distribution data and renaming of cor_p_val by @thomasyu888 in #13
[AG-698] Updates to develop branch by @thomasyu888 in #14
Adjust pipelines to be executed via gh-actions by @thomasyu888 in #15
Update documentation by @thomasyu888 in #16
Add dockerfile by @thomasyu888 in #18
Dev to main by @thomasyu888 in #17
AG-780 Update configs & README by @JessterB in #19
Merge main to dev to sync branches by @JessterB in #20
AG-701 - disable TREAT-AD score processing by @JessterB in #21
AG-701: Disable TREAT-AD scores in test_config.yaml by @JessterB in #22
Temporarily reenable TREAT-AD score processing in test-config only by @JessterB in #24
Disable TREAT-AD score processing by @JessterB in #25
AG-826: Update & reenable overall_scores processing by @JessterB in #26
AG-827: Update and reenable distribution_data processing by @JessterB in #27
AG-825 ADT: Reconfigure TMT proteomics to use new source files by @j-hendrickson-sage in #28
AG-825 by @JessterB in #29
Add in public dockerhub and fix some markdown issues by @thomasyu888 in #32
Update Dockerfile by @BWMac in #33
AG-915: pin source file versions for nextflowtower validation by @JessterB in #34
AG-915: Pin iGAP source file version for nft validation by @JessterB in #35
[IBCDPE-411]/test extract by @BWMac in #36
[IBCDPE-395]/adds ci pytest by @BWMac in #38
Ag 469 update ensembl ID list by @jaclynbeck-sage in #30
Notebook to update GWAS list by @jaclynbeck-sage in #31
AG-888: Pin source file versions and clean up configs by @JessterB in #39
AG-826: Revert neuropath handling changes until we are ready for it by @JessterB in #41
AG-492: Update config.yaml to process new source file versions by @JessterB in #42
Removed unnecessary results.json creation and upload to synapse by @jaclynbeck-sage in #43
AG-889: Process new version of scores source data by @JessterB in #44
Modified nest_fields to allow dropping columns from the nested dictionary by @jaclynbeck-sage in #45
Update load functions by @jaclynbeck-sage in #46
[IBCDPE-414] - test process tests by @BWMac in #48
AG-932/AG-958: Add biodomains dataset by @JessterB in #47
[IBCDPE-416] - Fixes/Re-Writes Tests for utils.py by @BWMac in #50
Deprecate processing with github actions by @thomasyu888 in #49
[IBCDPE-413]/test load.py by @BWMac in #51
[IBCDPE-415] transform tests by @BWMac in #52