Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

sync branch #1019

Merged
merged 161 commits into from
Jul 27, 2024
Merged

sync branch #1019

merged 161 commits into from
Jul 27, 2024

Conversation

gaow
Copy link
Contributor

@gaow gaow commented Jul 27, 2024

No description provided.

gaow and others added 30 commits April 4, 2024 10:47
@gaow
Merge pull request #958 from cumc/gw_container_update
646fc20 
Fix a typo in KING
@gaow
minor fix to log file
b0524a5
@gaow
Merge branch 'main' of github.com:cumc/xqtl-protocol
dac04f3
@rfeng2023
genotype alignment codes
57897ce
@gaow
Improve on the column names
69e7157
@rfeng2023
fix
f1b5d20
@AnqiWang2021
revise pip cutoff column names
ea86dd2
@rfeng2023
new normalization-pseudocount as 0.01 * cluster count
fd95c93
@rfeng2023
add description of geno alignment
2835a6a
@gaow
Merge pull request #960 from AnqiWang2021/main
9e5ace1 
revise pip cutoff column names
@gaow
check file match in global section
75319b7
@gaow
Merge pull request #959 from rfeng2023/geno_align
022f1db 
genotype alignment codes
update qvalue
be7d757
@gaow
Merge pull request #962 from cumc/gw_container_update
1848df2 
Update containers.csv
@zq2209
Merge branch 'cumc:main' into main
b3c8801
update pipeline
e83ee78
minor update
57248d1
minor fix
aa50a83
minor update
b2eee8b
@gaow
Merge pull request #961 from zq2209/main
6773c72 
update qvalue
@rfeng2023
add geno align and pvalue ordering and remove sumstats in fsusie
bc73775
@rfeng2023
modified cs update funtion
9eace61
@rfeng2023
only pick top 1 unpro event in lf2 results
1fb1e2b
@al4225
tensorqtl add quantile qtl as an option
4356906
@gaow
Merge pull request #964 from al4225/main
fffad67 
tensorqtl add quantile qtl as an option
@gaow
minor changes to tensorQTL quantile regression
4aab235
minor fix
7cee484
@gaow
Merge pull request #965 from zq2209/main
2fd38fa 
minor fix
minor fix
8db0d80
@gaow
Merge pull request #966 from zq2209/main
6c5ab83 
minor fix
gaow and others added 28 commits July 11, 2024 08:22
@gaow
Merge pull request #1005 from rfeng2023/covar_fix
911f0d8 
update colnames setting in old lookup table when running genotype_phe…
@Chunmingl
ctwas multigroup with LD
53568bc
protocol updates
c00f62b
@AnqiWang2021
update multi_gene pipeline
cba0fd4
@gaow
Merge pull request #1008 from AnqiWang2021/main
41515a4 
update multi_gene pipeline
@gaow
Merge pull request #1006 from Chunmingl/main
6309996 
ctwas multigroup pipeline with LD
@AnqiWang2021
update my_container
5ad580c
@AnqiWang2021
Update YAML files and Markdown table
3a39160
@gaow
Merge pull request #1009 from AnqiWang2021/my_container_update
f2959ce 
update my_container
@gaow
Merge pull request #1007 from grennfp/main
42a7920 
protocol updates
@Chunmingl
twas for univ and multiv
7cc10ed
@gaow
Merge pull request #1011 from Chunmingl/main
b5f11a1 
twas pipeline updated for using univ and multiv twas weight
@AnqiWang2021
update my_container
9278c5a
@AnqiWang2021
Update YAML files and Markdown table
a203c25
@gaow
Merge pull request #1012 from AnqiWang2021/my_container_update
68cdc2e 
update my_container
minor documentation udpates to splicing
5694763
@gaow
Merge pull request #1013 from grennfp/main
d9b2e08 
minor documentation udpates to splicing
@AnqiWang2021
update my_container
f1faaed
@AnqiWang2021
Update YAML files and Markdown table
9877b41
@gaow
Merge pull request #1014 from AnqiWang2021/my_container_update
1e96890 
update my_container
@rfeng2023
change gziped phenotype as bgziped format after sample lookup matching
783cb3f
@rfeng2023
add document for splicing nornalization steps
8af5371
@gaow
Merge pull request #1016 from rfeng2023/splicing
90d5c84 
add document for splicing normalization steps
@gaow
Merge pull request #1015 from rfeng2023/covar_fix
c2c0dcc 
change gziped phenotype as bgziped format after sample lookup matching
@rfeng2023
fix mean-imputation example
fc276a7
@rfeng2023
add depends in GWAS_QC genotype_phenotype_sample_overlap
0b5ea5e
@gaow
Merge pull request #1018 from rfeng2023/covar_fix
204bc99 
add depends in GWAS_QC genotype_phenotype_sample_overlap
@gaow
Merge pull request #1017 from rfeng2023/splicing
746a228 
fix mean-imputation example
@review-notebook-app Review Notebook App
Copy link

Check out this pull request on  ReviewNB

See visual diffs & provide feedback on Jupyter Notebooks.

Powered by ReviewNB

@gaow gaow merged commit bae3125 into gw_container_update Jul 27, 2024
1 of 2 checks passed
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers
No reviews
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.
9 participants
@gaow @rfeng2023 @AnqiWang2021 @zq2209 @al4225 @SamuelSun2000 @hsun3163 @Bale4 @Chunmingl