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mc2-center
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csbc-pson-dcc
Data coordination resources for the NCI CSBC and PS-ON consortia
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Migrate dataset folders
#70
andrewelamb
closed
4 years ago
0
Merged datasets table have a lot of changes to field that are not direct attributes
#69
andrewelamb
closed
4 years ago
7
datasets with duplicate grants
#68
andrewelamb
closed
4 years ago
1
Typos in grantnames
#67
andrewelamb
closed
4 years ago
1
Auto version bump
#66
jaeddy
closed
4 years ago
0
Add github action to bump table version
#65
thomasyu888
closed
4 years ago
0
Create GitHub action for updating table versions
#64
jaeddy
closed
4 years ago
1
Publications missing from merged publication table
#63
andrewelamb
closed
2 years ago
10
Projects missing merged projects table
#62
andrewelamb
closed
2 years ago
7
Grants missing in merged table
#61
andrewelamb
closed
4 years ago
13
link tools to publications in publication card
#58
bswhite
closed
2 years ago
2
Publications with two consortiums
#57
andrewelamb
closed
4 years ago
1
Figure out how to make use of sample data from NCBI
#56
jaeddy
closed
2 years ago
3
Fix bugs with fetching SRA sample-level data for BioProjects
#55
jaeddy
closed
4 years ago
0
Add additional vocabularies to CSBC/PS-ON annotations table
#54
jaeddy
closed
3 years ago
2
Troubleshoot and run publication-to-sample NCBI data retrieval script
#53
jaeddy
closed
4 years ago
3
collect sample/dataset metadata for any bioprojects matched to pubmed IDs
#52
jaeddy
closed
4 years ago
0
Fill in text for ecosystem section of homepage
#51
jaeddy
closed
4 years ago
4
Update short/display name for institutions
#50
jaeddy
closed
4 years ago
1
Create link entities for all NCBI samples associated with BioProjects
#49
jaeddy
closed
2 years ago
3
Migrate all linked NCBI-linked dataset folders to Portal DB project
#48
jaeddy
closed
2 years ago
9
Datasets with two consortium IDs
#47
andrewelamb
closed
4 years ago
11
Dataset table has a duplicated datatset
#46
andrewelamb
closed
4 years ago
2
Project in merged table has wrong consortium
#45
andrewelamb
closed
4 years ago
1
Theme IDs missing from tools in merged tools table
#44
andrewelamb
closed
4 years ago
5
Known issues in `add-geo-metadata-to-table.R`
#43
bswhite
closed
2 years ago
5
remove GEO superseries datasets
#42
bswhite
closed
4 years ago
2
theme, assay, tumorType columns don't exists in dataset table
#40
andrewelamb
closed
2 years ago
2
rows in merged dataset table have theme values while missign theme ids
#39
andrewelamb
closed
4 years ago
1
finding BioProject associated with a GEO GSE id
#38
bswhite
closed
4 years ago
4
first commit
#37
andrewelamb
closed
4 years ago
0
New descriptions in merged datasets table above 1000 chars.
#36
andrewelamb
closed
4 years ago
1
Represent different representations (e.g., GEO, SRA, dbGaP) of the same data as a single dataset with BioProject identifier
#35
bswhite
closed
4 years ago
3
Use grantNumber as key for grants not grantName
#34
bswhite
closed
2 years ago
7
Discrepencies between denormalized and merged grants tables
#33
andrewelamb
closed
4 years ago
2
Discrepencies between portalETL results and merged table for projects
#32
andrewelamb
closed
4 years ago
4
Create minimal, normalized table for datafiles
#31
jaeddy
closed
2 years ago
0
Missing 'assay' annotations in merged publications table
#30
jaeddy
closed
4 years ago
1
Use NCBI APIs/`rentrez`/`geoparse` to programmatically retrieve dataset annotations
#28
jaeddy
closed
4 years ago
4
Fix NAs / unannotated values
#27
jaeddy
closed
2 years ago
8
Rows in merged project table don't match any project/project description rows
#26
andrewelamb
closed
4 years ago
2
id columns that could be added to the various merged tables
#25
andrewelamb
closed
4 years ago
1
Manually added data in merged grants table inconsistent data added via ETL
#24
andrewelamb
closed
4 years ago
1
Tool cards TODO
#23
jaeddy
closed
2 years ago
3
Publication cards TODO
#22
jaeddy
closed
2 years ago
5
Dataset cards TODO
#21
jaeddy
closed
2 years ago
0
Enable portal demo "happy paths"
#19
jaeddy
closed
4 years ago
0
fix tools being dropped in pivot_wider and unnest steps
#18
andrewelamb
closed
4 years ago
0
Support manual curation workflow for portal tables
#17
jaeddy
closed
2 years ago
5
Data cleaning & ETL
#16
jaeddy
closed
4 years ago
0
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