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Al-Murphy / MungeSumstats

Rapid standardisation and quality control of GWAS or QTL summary statistics
https://doi.org/doi:10.18129/B9.bioc.MungeSumstats
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could not find function "liftover" #136

Closed ElizavetaElgaeva closed 1 year ago

ElizavetaElgaeva commented 1 year ago

1. Bug description

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2. Reproducible example

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3. Session info

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ElizavetaElgaeva commented 1 year ago

Hi! I loaded the MungeSumstats library and tried to call the liftover function, but got an error message: Error in liftover( <...> ) : could not find function "liftover". I tried to type ?liftover into console and got the full description of the function, but still I am disabled to use it. What is the problem with it?

Al-Murphy commented 1 year ago

Hey! I imagine this could be a version issue, it's best if you install R 4.2 and Bioconductor 3.16 to install MSS >=v1.6.0. There was a lot of improvements in this version over previous. Also liftover should be available in this version. You can use utils::sessionInfo() to check you rR/bioconductor/MSS version or alternatively do packageVersion('MungeSumstats')

Al-Murphy commented 1 year ago

Closing this for now but feel free to reopen if this did not resolve your issue