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27 Open 19 Closed
27 Open 19 Closed
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Issues list

Seeking Guidance on Calculating Effective Sample Size for Continuous Traits in GWAS
#55 opened Nov 2, 2023 by showers14
clumping problem´s
#54 opened Aug 10, 2023 by mortensallingolesen
3
sumstats.py clump ##Error
#53 opened Jun 2, 2023 by zhousiquan
1
issue with running sumstat.py script
#52 opened Feb 9, 2023 by rezarahman12
sumstats.py how generate Z value
#50 opened Oct 22, 2022 by chenyangjjj
sumstats.py : ix is deprecated
#49 opened May 25, 2022 by zillurbmb51
exlucde region in ’clump‘
#48 opened Dec 14, 2021 by LiuYunjia
Lift over error: invalid literal for int() with base 10: '2_KI270773v1_alt'
#47 opened May 19, 2021 by Dazcam
Error with 'variantid' function
#46 opened Mar 18, 2021 by WQ-CHENG
2
Handle A1/REF/ALT from plink2 glm
#44 opened Dec 8, 2020 by ofrei
1
option to alternate color of chromosomes
#41 opened Apr 25, 2020 by jaamarks
add lambda value to qq.plot
#40 opened Apr 25, 2020 by jaamarks
Run a GWAS on multiple phenotypes in one command
#39 opened Apr 23, 2020 by ofrei
Error report when using fdrmat2csv.py: Length of values does not match length of index
#38 opened Mar 30, 2020 by WQ-CHENG
1
python_convert lift doesn't report an error when input file has neither SNP nor CHR:BP information
#34 opened Dec 18, 2019 by nazkaradag
sumstat lift produces multiple rs ids for the same chr:pos
#31 opened Sep 24, 2018 by interCM
1
implement deduplication in lift
#29 opened Aug 16, 2018 by ofrei
Handle zero pval (numeric overflow)
#28 opened May 15, 2018 by shahramb160
1
make_lift should recognize PGC I/D variants
#27 opened Apr 26, 2018 by ofrei
1
Revisit pd.merge usage
#26 opened Feb 2, 2018 by ofrei
Switch sumstats.py lift to new JSON releases of SNPdb
#25 opened Feb 2, 2018 by ofrei
Loading 23andme sumstats to 11M template
#23 opened Jan 25, 2018 by ofrei
1
sumstats.py implement better deduplication in csv tool
#22 opened Nov 30, 2017 by ofrei
sumstats.py lift: take A1/A2 into account when merging with chrposonref table
#21 opened Nov 30, 2017 by ofrei
Add number of genome-wide hits in summary stats to logs
#19 opened Nov 15, 2017 by ofrei
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