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PGScatalog
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pygscatalog
Python applications and libraries for working with PGS data and the PGS Catalog
https://pygscatalog.readthedocs.io/en/latest/
Apache License 2.0
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Fix combine CLI producing empty output with invalid data
#56
nebfield
closed
5 days ago
1
WARNING None fewer variants in output compared to original file
#55
amstilp
closed
5 days ago
3
Add tests to publish action
#54
nebfield
opened
2 weeks ago
0
Effect weight fields should be mutually exclusive
#53
nebfield
opened
2 weeks ago
0
add `verify_variants` CLI option to `pgscatalog-aggregate`
#52
nebfield
closed
3 weeks ago
2
Rate limit downloads from EBI FTP
#51
nebfield
closed
3 weeks ago
1
Gradually introduce type checking
#50
nebfield
closed
1 month ago
1
Update score log structure
#49
nebfield
closed
1 month ago
1
include example of validating a scoring file header
#48
nebfield
closed
1 month ago
1
Tidy up: delete unused target variants module
#47
nebfield
closed
1 month ago
1
Update ScoreVariant to support exact PGS Catalog standard
#46
nebfield
closed
3 weeks ago
10
Added legacy pgscatalog_utils scoring file validator to pygscatalog.validate
#45
fyvon
opened
2 months ago
0
Exception: Bad effect weights
#44
TravisMizeIGH
closed
3 weeks ago
2
Parallelise combine scorefiles
#43
nebfield
opened
2 months ago
0
fix missing log information
#42
nebfield
closed
2 months ago
1
Log loses information about matched variants for scores that don't pass filtering process
#41
nebfield
closed
2 months ago
0
pgscatalog-match v0.3.1
#40
nebfield
closed
2 months ago
1
Update singularity build/push
#39
nebfield
closed
2 months ago
0
Fix variant deduplication
#38
nebfield
closed
2 months ago
1
--overwrite should only overwrite if the local and remote md5s differ
#37
nebfield
opened
2 months ago
0
pgscatalog-match v0.3.0
#36
nebfield
closed
2 months ago
2
Issue with '--keep_ambiguous' Option and Possible Bug
#35
ijorge24
closed
2 months ago
0
error using custom scoring file when running pgscatalog/pgsc_calc
#34
Wenjie-Ma-ScD
closed
3 months ago
3
Fix intersection filters (default: no filtering)
#33
smlmbrt
closed
3 months ago
0
Fix issues in intersect
#32
smlmbrt
closed
3 months ago
0
add support for FID
#31
nebfield
closed
3 months ago
0
Fix support for missing other_allele column
#30
nebfield
closed
3 months ago
0
Handle dynamic pvar columns better
#29
nebfield
opened
3 months ago
0
Compressed CSV files don't get batch read
#28
nebfield
opened
3 months ago
0
Add bioconda badges
#27
nebfield
closed
4 months ago
0
Add `pgscatalog.utils` publish container action
#26
nebfield
closed
2 months ago
1
Patch to fix `pgscatalog-intersect` with bim input
#25
nebfield
closed
4 months ago
0
Patch releases to downgrade minimum python version to 3.10
#24
nebfield
closed
4 months ago
0
Improve aggregation
#23
nebfield
closed
4 months ago
0
Fix pgscatalog.match performance regression
#22
nebfield
closed
4 months ago
0
Investigate weird `pgscatalog.core.lib.pgsexceptions.MatchRateError`
#21
nebfield
closed
4 months ago
1
Performance regression when reading scoring files during matching
#20
nebfield
closed
4 months ago
0
Fix problems with ancestry aggregation & scaling on biobank-data
#19
smlmbrt
closed
4 months ago
1
Ancestry analysis is adjusting AVGs
#18
smlmbrt
closed
4 months ago
0
PGS Catalog Calculator integration
#17
nebfield
closed
5 months ago
0
When `MatchError` is raised write variant matching logs
#16
nebfield
closed
5 months ago
1
`pgscatalog.core` v0.1.1
#15
nebfield
closed
6 months ago
0
Combine scorefiles scalability/reliability?
#14
smlmbrt
closed
6 months ago
4
Add `pgscatalog-intersect`to `pgscatalog.match`
#13
nebfield
closed
7 months ago
0
Add score file validation
#12
smlmbrt
opened
7 months ago
0
Update README.md
#11
nebfield
closed
7 months ago
0
Merge libraries and applications
#10
nebfield
closed
7 months ago
0
Add credits and links to existing package
#9
smlmbrt
closed
7 months ago
0
Add information/links to original implementation
#8
smlmbrt
closed
7 months ago
0
Update README.md
#7
nebfield
closed
7 months ago
0
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