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genepi
/
nf-gwas
A nextflow pipeline to perform state-of-the-art genome-wide association studies.
https://genepi.github.io/nf-gwas
MIT License
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Feature/interaction testing
#57
johsr
closed
1 year ago
1
Error while running the pipeline on a test dataset
#56
nafizh
closed
2 years ago
2
Features/integrate gene based tests
#55
seppinho
closed
2 years ago
0
Merge main into branch
#54
seppinho
closed
2 years ago
0
Update test-case and add leading zero (nf-test 0.6.0 fix)
#53
seppinho
closed
2 years ago
0
Merge main into branch
#52
seppinho
closed
2 years ago
0
Tweak the file paths in regenie_step1_out_pred.list for REGENIE_STEP_2
#51
abhi18av
closed
2 years ago
4
Merge main into improved-r-report
#50
seppinho
closed
2 years ago
0
Feature/chrbp sorting
#49
filosi
closed
2 years ago
1
Add sorting when merging results
#48
filosi
closed
2 years ago
0
Issues with empty files on cloud
#47
abhi18av
closed
2 years ago
1
Bundle the jbang-compiled JARs within the docker container and update empty-file usage for cloud storage
#46
abhi18av
closed
2 years ago
6
jbang exceptions while running on cloud
#45
abhi18av
closed
2 years ago
4
Feature/chrbp sorting
#44
filosi
closed
2 years ago
2
Output are not sorted by chromosome and bp
#43
filosi
closed
2 years ago
0
Feature/qqplot_by_maf
#42
filosi
closed
2 years ago
0
Feature/qqp by maf
#41
filosi
closed
2 years ago
0
Gene-level analysis
#40
filosi
closed
2 years ago
1
Gene level test option
#39
g-antonello
closed
2 years ago
5
Report qqplot by MAF
#38
filosi
closed
2 years ago
6
Update cmd-tools.md
#37
johsr
closed
2 years ago
0
Update links and correct test command typo
#36
johsr
closed
2 years ago
0
Correct small typos
#35
johsr
closed
2 years ago
0
Improvements/add testcases
#34
seppinho
closed
2 years ago
0
Merge pull request #32 from genepi/features/improve-manhattan
#33
seppinho
closed
2 years ago
0
Features/improve manhattan
#32
seppinho
closed
2 years ago
0
Features/improve manhattan
#31
seppinho
closed
2 years ago
0
Make param to enable/disable annotation
#30
seppinho
closed
2 years ago
0
Add check if phenotype / covariate columns are set
#29
seppinho
opened
2 years ago
1
Update environment.yml
#28
seppinho
closed
2 years ago
0
Change to an annotated manhattan plot and add the list with all top hits
#27
johsr
closed
2 years ago
0
Add closest genes for the significant loci to the Manhattan plot
#26
johsr
closed
2 years ago
0
Add rsID to the annotated output
#25
johsr
closed
1 year ago
1
Wrong gene start, end and distance in the annotated output
#24
johsr
closed
2 years ago
0
RMarkdown report settings step 1
#23
johsr
opened
3 years ago
0
Support --force-step1
#22
johsr
closed
2 years ago
1
Add effect prediction step
#21
seppinho
opened
3 years ago
0
Fix cloudgene yaml
#20
lukfor
closed
3 years ago
0
Prepare release 0.1.7
#19
seppinho
closed
3 years ago
0
Improvements/add phenotype validation
#18
seppinho
closed
3 years ago
0
Add genes to report
#17
lukfor
closed
3 years ago
2
Features/cloudgene support
#16
lukfor
closed
3 years ago
0
Improve error message for required parameters
#15
lukfor
closed
3 years ago
1
Rebase features/cloudgene-support
#14
lukfor
closed
3 years ago
0
Support genotyped array data in VCF format
#13
seppinho
closed
4 months ago
0
Improve binary traits support
#12
seppinho
closed
3 years ago
1
Parse regenie call
#11
seppinho
closed
3 years ago
1
Validate phenotype file
#10
seppinho
closed
3 years ago
1
Improvements/dsl2
#8
seppinho
closed
3 years ago
0
Improvements/restructure workflow
#7
seppinho
closed
3 years ago
0
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