Nealelab UK_Biobank_GWAS issues

Nealelab / UK_Biobank_GWAS

Overview of the data QC, code, and GWAS summary output from the 2017 UK Biobank data release

349 stars 107 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Sample quality control was performed using ukb_sqc_v2.txt

#57 lzy-59 opened 4 weeks ago
0
Where can we get the smaple of size of cases？

#56 Leweibo opened 7 months ago
0
How is sex determined

#55 euffelmann closed 8 months ago
2
Inconsistency in MD5 Checksums for imputed v3 GWAS sumstats

#54 xinyixinyijiang closed 8 months ago
2
PLINK2 software problem

#53 Akki-akki opened 10 months ago
0
how QC going?

#52 Akki-akki opened 10 months ago
0
file question about UKBB

#51 aikedan closed 11 months ago
2
HWE threshold for VEF coded SNPs

#50 BoxiLin closed 1 year ago
3
citation

#49 sofiapuvogelvittini closed 1 year ago
1
input file

#48 guido233 opened 1 year ago
0
imputed-v3-gwas

#47 guido233 closed 1 year ago
0
File structure

#46 guido233 opened 1 year ago
0
Order of the code in 0.2

#45 guido233 closed 1 year ago
3
european_samples.tsv is ambiguous for mapping to application-specific ids

#44 ddrichel opened 1 year ago
0
covariates

#43 ZhiyiZhu0226 opened 1 year ago
5
How IRNT was conducted on sex-stratified analysis

#42 BoxiLin closed 1 year ago
1
Ordinal phenotypes

#41 jennysjaarda closed 1 year ago
1
References in Google Doc - menifest tab

#40 kalkairis closed 3 years ago
2
Sample-QC file at UK biobank

#39 amaa11 closed 3 years ago
2
Dropbox links aren't working

#38 will-camb opened 3 years ago
4
Computing resources necessary for GWAS

#37 eric-czech closed 3 years ago
3
Questions on organization and possible discrepancies

#36 eric-czech closed 3 years ago
2
Running ukb31063_eur_selection.R

#35 marcustutert closed 3 years ago
3
Including Chromosome X in GWAS

#34 montenegrina opened 3 years ago
0
Broken links to the GWAS results

#33 fmarotta closed 4 years ago
4
Where to find pheWAS result of V3?

#32 Shicheng-Guo closed 4 years ago
1
How to handle missing dosage of imputed data.

#31 Ojami closed 4 years ago
9
Fix typo in v2 README

#30 hammer closed 4 years ago
0
Generating the file "neale_lab_parsed.tsv"

#29 yang654 closed 4 years ago
2
Imputed dosage/GT/GP? Which and why?

#28 Ojami closed 4 years ago
0
ICD-10 based diagnoses?

#27 Ojami closed 4 years ago
2
Clarify MAF threshold (0.0001 or 0.001)

#26 ofrei closed 4 years ago
2
Downloading self reported ancestry

#25 sanjanagupta-ucl closed 4 years ago
3
Unrelatedness in sample QC?

#24 Ojami closed 4 years ago
2
how to get the sample ID of the ukb_sqc_v2.txt file?

#23 chenfei2 closed 4 years ago
1
where is ukb_sqc_v2.txt file located?

#22 montenegrina closed 5 years ago
2
Biobank QC and GWAS

#21 montenegrina closed 4 years ago
11
pheno 137

#20 jennysjaarda closed 4 years ago
5
Ldsc export 0.2

#19 rkwalters closed 5 years ago
0
irnt script

#18 liameabbott closed 5 years ago
0
remove extra scripts

#17 liameabbott closed 5 years ago
0
beginning code conversion to 0.2

#16 liameabbott closed 5 years ago
0
Update README.md

#15 lfrancioli closed 5 years ago
0
Updated Manhattan_plot.R: ~200x less memory, ~5x faster, works on Mac

#14 lfrancioli closed 5 years ago
4
Problem for version 2

#13 biostat0903 closed 4 years ago
2
added script selecting European ancestry samples

#12 liameabbott closed 6 years ago
0
Unable to reproduce your sample QC exactly

#11 cqgd closed 6 years ago
4
regression test

#10 ukbsc closed 6 years ago
1
Incorrect results for pregnancy related outcomes?

#9 gbiele closed 6 years ago
2
removed unnecessary phenosummary table load in ldsc sumstats export

#8 liameabbott closed 6 years ago
0