echodata: Getting Started


Author: Brian M. Schilder


Most recent update: Nov-17-2023

Source: vignettes/echodata.Rmd

Example full SS

Example full GWAS summary statistics.

Nalls 2019

Parkinson’s Disease GWAS from Nalls et al., 2019.

fullSS_Nalls2019 <- echodata::example_fullSS(dataset = "Nalls2019")
## Writing file to ==> /tmp/RtmpdAsvXH/nalls2019.fullSS_subset.tsv

Kunkle 2019

Alzheimer’s Disease GWAS from Kunkle et al., 2019.

fullSS_Kunkle2019 <- echodata::example_fullSS(dataset = "Kunkle2019")
## Writing file to ==> /tmp/RtmpdAsvXH/kunkle2019.fullSS_subset.tsv

Session Info 

utils::sessionInfo()
## R Under development (unstable) (2023-11-08 r85496)
## Platform: x86_64-pc-linux-gnu
## Running under: Ubuntu 22.04.3 LTS
## 
## Matrix products: default
## BLAS:   /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 
## LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.20.so;  LAPACK version 3.10.0
## 
## 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       
## 
## time zone: UTC
## tzcode source: system (glibc)
## 
## attached base packages:
## [1] stats     graphics  grDevices utils     datasets  methods   base     
## 
## other attached packages:
## [1] echodata_0.99.17 BiocStyle_2.31.0
## 
## loaded via a namespace (and not attached):
##  [1] tidyr_1.3.0         sass_0.4.7          utf8_1.2.4         
##  [4] generics_0.1.3      stringi_1.8.1       hms_1.1.3          
##  [7] digest_0.6.33       magrittr_2.0.3      evaluate_0.23      
## [10] bookdown_0.36       fastmap_1.1.1       R.oo_1.25.0        
## [13] rprojroot_2.0.4     jsonlite_1.8.7      R.utils_2.12.2     
## [16] zip_2.3.0           BiocManager_1.30.22 purrr_1.0.2        
## [19] fansi_1.0.5         textshaping_0.3.7   jquerylib_0.1.4    
## [22] cli_3.6.1           rlang_1.1.2         R.methodsS3_1.8.2  
## [25] cachem_1.0.8        yaml_2.3.7          tools_4.4.0        
## [28] parallel_4.4.0      tzdb_0.4.0          memoise_2.0.1      
## [31] dplyr_1.1.3         DT_0.30             vctrs_0.6.4        
## [34] R6_2.5.1            lifecycle_1.0.4     stringr_1.5.1      
## [37] fs_1.6.3            htmlwidgets_1.6.2   ragg_1.2.6         
## [40] pkgconfig_2.0.3     desc_1.4.2          pkgdown_2.0.7      
## [43] bslib_0.5.1         pillar_1.9.0        openxlsx_4.2.5.2   
## [46] data.table_1.14.8   glue_1.6.2          Rcpp_1.0.11        
## [49] systemfonts_1.0.5   xfun_0.41           tibble_3.2.1       
## [52] tidyselect_1.2.0    knitr_1.45          htmltools_0.5.7    
## [55] rmarkdown_2.25      piggyback_0.1.5     readr_2.1.4        
## [58] compiler_4.4.0