# \#genomicsem

**URL:** https://isgw-forum.colorado.edu/tag/genomicsem/9.md

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## [userGWAS Matrix Error](https://isgw-forum.colorado.edu/t/usergwas-matrix-error/880)

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**Author:** [@anonymous](https://isgw-forum.colorado.edu/u/anonymous)\
**Replies:** 0\
**Last updated:** [June 10, 2026, 2:15pm UTC](https://isgw-forum.colorado.edu/t/usergwas-matrix-error/880 "2026-06-10T14:15:14Z")

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This is a very specific question, but I’ve gotten the error “Error in crossprod(wls.diff, wls.v) : non-conformable arguments Calls: userGWAS”, when running an African-ancestry multivariate gwas. I haven’t been able to fi…

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## [Sumstats() Settings and Effect-Size Conversion](https://isgw-forum.colorado.edu/t/sumstats-settings-and-effect-size-conversion/868)

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**Author:** [@anonymous](https://isgw-forum.colorado.edu/u/anonymous)\
**Replies:** 0\
**Last updated:** [June 10, 2026, 1:43pm UTC](https://isgw-forum.colorado.edu/t/sumstats-settings-and-effect-size-conversion/868 "2026-06-10T13:43:18Z")

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Are the latent variable “effects” (the est column in latent trait sumstats) always converted to continuous beta effects after GenomicSEM after using uswerGWAS () ? Replying to “Are the latent variable “effects” (the es…

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## [GWAS-by-Subtraction, Cog, and NonCog](https://isgw-forum.colorado.edu/t/gwas-by-subtraction-cog-and-noncog/856)

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**Author:** [@anonymous](https://isgw-forum.colorado.edu/u/anonymous)\
**Replies:** 0\
**Last updated:** [June 10, 2026, 1:23pm UTC](https://isgw-forum.colorado.edu/t/gwas-by-subtraction-cog-and-noncog/856 "2026-06-10T13:23:01Z")

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In the GWAS by subtraction lecture, the COG latent factor was described ‘causing’ the CP observed variable. Given that the CP observed variable is not a direct measure of cognitive performance but rather the summary stat…

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## [Educational Fields GWAS-by-Subtraction and Heritability](https://isgw-forum.colorado.edu/t/educational-fields-gwas-by-subtraction-and-heritability/852)

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**Author:** [@anonymous](https://isgw-forum.colorado.edu/u/anonymous)\
**Replies:** 0\
**Last updated:** [June 10, 2026, 1:16pm UTC](https://isgw-forum.colorado.edu/t/educational-fields-gwas-by-subtraction-and-heritability/852 "2026-06-10T13:16:19Z")

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In the GWAS on educational fields, the authors said “We note that it is not recommended to base heritability estimates on the former approach (GWASs by subtraction), because environmental variance is undefined.” Does tha…

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## [Resources for learning about Structural Equation Modeling (SEM)](https://isgw-forum.colorado.edu/t/resources-for-learning-about-structural-equation-modeling-sem/836)

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**Author:** [@bml](https://isgw-forum.colorado.edu/u/bml)\
**Replies:** 0\
**Last updated:** [June 10, 2026, 12:24am UTC](https://isgw-forum.colorado.edu/t/resources-for-learning-about-structural-equation-modeling-sem/836 "2026-06-10T00:24:10Z")

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Re-posting a question that I and another person had during a live practical session. What resources would you recommend to learn about SEM, for folks new to this?

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## [Multivariate GWAS with GenomicSEM](https://isgw-forum.colorado.edu/t/multivariate-gwas-with-genomicsem/650)

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**Author:** [@rcupertino](https://isgw-forum.colorado.edu/u/rcupertino)\
**Replies:** 0\
**Last updated:** [August 15, 2024, 9:46pm UTC](https://isgw-forum.colorado.edu/t/multivariate-gwas-with-genomicsem/650 "2024-08-15T21:46:56Z")

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Hi, I’m trying to run a multivariate GWAS using GenomicSEM. I munged the sumstats, did ldsc and I’m having error with the function sumstats, see below: files ← c(“ftnd\_wave3\_meta\_analysis\_summary\_stats.all\_chr.eur.txt”…

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## [Backing out effective sample size](https://isgw-forum.colorado.edu/t/backing-out-effective-sample-size/523)

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**Author:** [@Andrew\_Grotzinger](https://isgw-forum.colorado.edu/u/Andrew_Grotzinger)\
**Replies:** 0\
**Last updated:** [March 10, 2023, 4:58pm UTC](https://isgw-forum.colorado.edu/t/backing-out-effective-sample-size/523 "2023-03-10T16:58:35Z")

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Hi everyone, There were several questions yesterday that centered around how to get the appropriate effective sample size for various situations (e.g., when analyzing GWAS data with related individuals, for case/control…