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TheJacksonLaboratory
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LIRICAL
LIkelihood Ratio Interpretation of Clinical AbnormaLities
https://thejacksonlaboratory.github.io/LIRICAL/stable
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Add `config` command
#611
ielis
opened
1 year ago
0
HTML report contains unexpected text in phenotype-only mode
#610
ielis
closed
1 year ago
2
Fix variant filtering statistics
#609
ielis
closed
6 months ago
0
Update the `pages.yml` workflow and top-level POM Javadoc config.
#608
ielis
closed
1 year ago
0
Release v2.0.0-RC2
#607
ielis
closed
1 year ago
0
Fix pretest probability calculation.
#606
ielis
closed
1 year ago
0
Setup documentation on github.io
#605
ielis
closed
1 year ago
0
Shrink poisson API, improve javadocs, use selected disease databases to calculate pretest probability
#604
ielis
closed
1 year ago
0
Rework logging
#603
ielis
closed
1 year ago
0
Update documentation
#602
ielis
closed
1 year ago
0
Update dependencies
#601
ielis
closed
1 year ago
0
Bump jackson-databind from 2.13.3 to 2.13.4.2
#600
dependabot[bot]
closed
1 year ago
1
Current YAML configuration doesn't work
#599
Phillip-a-richmond
closed
1 year ago
3
Update tutorial.rst
#598
iimpulse
closed
1 year ago
0
Phenopackets v2 support
#597
yaseminbridges
closed
1 year ago
2
NOT_OBSERVED variants and post-test probability in WES vcf
#596
yskishr
closed
1 year ago
1
Fix Exomiser file locked error when running LIRICAL multiple times in…
#595
mabeckwith
closed
1 year ago
0
Rework configuration and analysis options
#594
ielis
closed
1 year ago
0
Bump htsjdk from 2.24.1 to 3.0.1
#593
dependabot[bot]
closed
1 year ago
1
ClinVar integration
#592
pnrobinson
closed
1 year ago
0
HPO+VCF YAML FILE: Cannot coerce empty String ("") to element of `java.util.LinkedHashMap<java.lang.String,java.lang.String>`
#591
Rismail11
closed
1 year ago
0
Compiling LIRICAL successful, but no executable produced
#590
twincacca
closed
7 months ago
8
Bump jackson-databind from 2.13.3 to 2.13.4.1
#589
dependabot[bot]
closed
1 year ago
1
Implement JSON output format
#588
ielis
closed
1 year ago
0
Bump protobuf-java from 3.19.4 to 3.19.6
#587
dependabot[bot]
closed
1 year ago
1
BENIGN_OR_LIKELY_BENIGN
#586
pnrobinson
closed
1 year ago
0
Error with the input from Deepvariant pipeline
#585
genmaibutter
closed
1 year ago
1
Documentation update?
#584
seoanezonjic
closed
1 year ago
2
KANSL1 variants bug
#583
pnrobinson
opened
1 year ago
0
Enable SNAPSHOTS in `dev` profile
#582
ielis
closed
1 year ago
0
Include disease onset into LR calculation
#581
ielis
opened
1 year ago
0
Improve YAML parsing
#580
ielis
opened
1 year ago
2
Release `v2.0.0-RC1`
#579
ielis
closed
1 year ago
0
Prune modules, fix `LiricalAnalysisRunner`
#578
ielis
closed
1 year ago
0
TSV output when using yaml files
#577
evatosco
closed
1 year ago
2
Problems with automated run of 8+ VCFs + HPOs
#576
evatosco
closed
1 year ago
2
HPO + VCF : java.lang.ArrayIndexOutOfBoundsException: Index 9 out of bounds for length 7
#575
tpYaki
closed
1 year ago
5
Benchmark modular LIRICAL on 384 phenopackets used in the manuscript
#574
ielis
closed
1 year ago
1
Improve progress reporting.
#573
ielis
closed
2 years ago
0
Use `PretestDiseaseProbability` from `AnalysisData`.
#572
ielis
closed
2 years ago
0
Add `PretestDiseaseProbability` to `AnalysisOptions`.
#571
ielis
closed
2 years ago
0
Ensure that artifact versions are only set in `dependencyManagement` section.
#570
ielis
closed
2 years ago
0
Bump jackson-databind from 2.12.1 to 2.12.6.1
#569
dependabot[bot]
closed
1 year ago
1
`VariantParserFactory` is an optional attribute of `Lirical`.
#568
ielis
closed
2 years ago
0
Allow running without Exomiser
#567
ielis
closed
2 years ago
0
Fix logback configurations.
#566
ielis
closed
2 years ago
0
Use HGNC complete set archive for getting `GeneIdentifiers`.
#565
ielis
closed
2 years ago
0
Improve presentation of variants in HTML report.
#564
iimpulse
closed
2 years ago
1
Check Exomiser database compatibility
#563
ielis
opened
2 years ago
3
picocli shortcut
#562
pnrobinson
closed
1 year ago
1
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