Last updated: 2022-02-09

Checks: 7 0

Knit directory: snRNA_eqtl/

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File Version Author Date Message
html fbbf022 Julien Bryois 2022-01-28 Build site.
html 1226dbd Julien Bryois 2022-01-25 Build site.
Rmd 44d57c4 Julien Bryois 2022-01-25 Index
html d2896af Julien Bryois 2021-12-01 Build site.
Rmd b1d314e Julien Bryois 2021-12-01 eqtl_code_added, figures added
html 67ca055 Julien Bryois 2021-11-29 Build site.
Rmd 4b8b916 Julien Bryois 2021-11-29 expression code added
html cefc5e2 Julien Bryois 2021-11-26 Build site.
Rmd 45d6051 Julien Bryois 2021-11-26 Genotype process clean
html 5a68f72 Julien Bryois 2021-11-26 Build site.
Rmd 0ab5840 Julien Bryois 2021-11-26 Publish genotype processing + initial files
Rmd 3a3edb2 Julien Bryois 2021-11-24 Start workflowr project.

Figures

Figures

Supplementary tables

Supplementary tables

Processing code

Process genotypes

Process expression

Run eQTL

Run cell-type specific eQTL

Run Coloc

Run Coloc GTEx + Dice

eQTL epigenome enrichment

GWAS epigenome overlap

Prepare ShinyApp


sessionInfo()
R version 4.0.1 (2020-06-06)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)

Matrix products: default
BLAS/LAPACK: /pstore/apps/OpenBLAS/0.3.1-GCC-7.3.0-2.30/lib/libopenblasp-r0.3.1.so

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] workflowr_1.6.2

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.6        rprojroot_1.3-2   digest_0.6.25     later_1.1.0.1    
 [5] R6_2.4.1          backports_1.1.7   git2r_0.27.1      magrittr_1.5     
 [9] evaluate_0.14     stringi_1.4.6     rlang_0.4.10      fs_1.4.1         
[13] promises_1.1.1    whisker_0.4       rmarkdown_2.2     tools_4.0.1      
[17] stringr_1.4.0     glue_1.4.1        httpuv_1.5.4      xfun_0.14        
[21] yaml_2.2.1        compiler_4.0.1    htmltools_0.5.1.1 knitr_1.28