Last updated: 2022-02-23
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Knit directory: Serreze-T1D_Workflow/
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| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | c62f852 | Belinda Cornes | 2022-02-23 | updating geno freq calculation and correcting phenotypes |
| Rmd | 80fa7b1 | Belinda Cornes | 2022-02-23 | Start workflowr project. |
| html | 982969f | Belinda Cornes | 2022-02-11 | Build site. |
| Rmd | fc17722 | Belinda Cornes | 2022-02-11 | QTL Mapping correcting MAF cutoff |
| html | 14f643a | Belinda Cornes | 2022-02-11 | Build site. |
| Rmd | 676cb2e | Belinda Cornes | 2022-02-11 | updating index |
| html | d3accce | Belinda Cornes | 2022-02-11 | Build site. |
| Rmd | e325cf0 | Belinda Cornes | 2022-02-11 | updating index |
| html | 1218e08 | Belinda Cornes | 2022-02-11 | Build site. |
| Rmd | 8427b21 | Belinda Cornes | 2022-02-11 | QTL Mapping after snp qc |
| html | 7b05d41 | Belinda Cornes | 2022-02-10 | Build site. |
| Rmd | d199bd4 | Belinda Cornes | 2022-02-10 | QC analysis |
| Rmd | 131508a | Belinda Cornes | 2022-02-10 | Start workflowr project. |
| abbreviations for strains: | AB: het; AA: hom |
| type of cross: | Backcross |
| number of mice phenotyped: | 192 |
| total number of mice phenotypes: | 2 [1 binary/1 quantiative] |
| phenotypes: | diabetic status/group [binary] & age of onset [continuous] |
| number of mice: | 192 |
| number of markers: | 137302 |
| covariates: | sex [F: 192; M: 0] (sex not used as all females); binary diabetic status for continous traits |
R version 3.6.2 (2019-12-12)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Catalina 10.15.7
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
locale:
[1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_AU.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] ggrepel_0.8.2 qtlcharts_0.11-6 qtl2_0.22 broman_0.70-4
[5] ggplot2_3.3.5 tibble_3.1.2 readxl_1.3.1 cluster_2.1.0
[9] dplyr_0.8.5 optparse_1.6.6 mclust_5.4.6 tidyr_1.0.2
[13] data.table_1.14.0 knitr_1.33 kableExtra_1.1.0 workflowr_1.6.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.7 assertthat_0.2.1 rprojroot_1.3-2 digest_0.6.27
[5] utf8_1.2.1 R6_2.5.0 cellranger_1.1.0 backports_1.2.1
[9] RSQLite_2.2.7 evaluate_0.14 httr_1.4.1 pillar_1.6.1
[13] rlang_0.4.11 rstudioapi_0.13 whisker_0.4 blob_1.2.1
[17] rmarkdown_2.1 qtl_1.46-2 webshot_0.5.2 readr_1.3.1
[21] stringr_1.4.0 bit_4.0.4 munsell_0.5.0 compiler_3.6.2
[25] httpuv_1.5.2 xfun_0.24 pkgconfig_2.0.3 htmltools_0.5.1.1
[29] tidyselect_1.0.0 fansi_0.5.0 viridisLite_0.4.0 crayon_1.4.1
[33] withr_2.4.2 later_1.0.0 grid_3.6.2 jsonlite_1.7.2
[37] gtable_0.3.0 lifecycle_1.0.0 DBI_1.1.1 git2r_0.26.1
[41] magrittr_2.0.1 scales_1.1.1 stringi_1.7.2 cachem_1.0.5
[45] fs_1.4.1 promises_1.1.0 getopt_1.20.3 xml2_1.3.1
[49] ellipsis_0.3.2 vctrs_0.3.8 tools_3.6.2 bit64_4.0.5
[53] glue_1.4.2 purrr_0.3.4 hms_0.5.3 parallel_3.6.2
[57] fastmap_1.1.0 yaml_2.2.1 colorspace_2.0-2 rvest_0.3.5
[61] memoise_2.0.0