Last updated: 2022-04-17
Checks: 5 2
Knit directory: cTWAS_analysis/
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|---|---|
| /project2/xinhe/shengqian/cTWAS/cTWAS_analysis/data/ | data |
| /project2/xinhe/shengqian/cTWAS/cTWAS_analysis/code/ctwas_config.R | code/ctwas_config.R |
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#number of imputed weights
nrow(qclist_all)[1] 9529#number of imputed weights by chromosome
table(qclist_all$chr)
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20
933 692 571 374 467 524 440 350 368 387 579 538 199 328 331 401 589 153 755 277
21 22
25 248 #number of imputed weights without missing variants
sum(qclist_all$nmiss==0)[1] 6774#proportion of imputed weights without missing variants
mean(qclist_all$nmiss==0)[1] 0.7109
sessionInfo()R version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Scientific Linux 7.4 (Nitrogen)
Matrix products: default
BLAS/LAPACK: /software/openblas-0.2.19-el7-x86_64/lib/libopenblas_haswellp-r0.2.19.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_1.7.0
loaded via a namespace (and not attached):
[1] Rcpp_1.0.8 highr_0.9 jquerylib_0.1.4 compiler_3.6.1
[5] pillar_1.6.4 later_0.8.0 git2r_0.26.1 tools_3.6.1
[9] getPass_0.2-2 bit_4.0.4 digest_0.6.29 memoise_2.0.1
[13] RSQLite_2.2.8 evaluate_0.14 tibble_3.1.6 lifecycle_1.0.1
[17] pkgconfig_2.0.3 rlang_1.0.1 DBI_1.1.2 cli_3.1.0
[21] rstudioapi_0.13 yaml_2.2.1 xfun_0.29 fastmap_1.1.0
[25] httr_1.4.2 stringr_1.4.0 knitr_1.36 fs_1.5.2
[29] vctrs_0.3.8 bit64_4.0.5 rprojroot_2.0.2 data.table_1.14.2
[33] glue_1.6.2 R6_2.5.1 processx_3.5.2 fansi_1.0.2
[37] rmarkdown_2.11 blob_1.2.2 callr_3.7.0 magrittr_2.0.2
[41] whisker_0.3-2 ps_1.6.0 promises_1.0.1 htmltools_0.5.2
[45] ellipsis_0.3.2 httpuv_1.5.1 utf8_1.2.2 stringi_1.7.6
[49] cachem_1.0.6 crayon_1.5.0