Last updated: 2023-01-11
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Untracked: data/serreze_probs_allqc_4.batches_myo.rds
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Untracked: data/summary.cg_4.batches_myo.RData
Untracked: output/Percent_missing_genotype_data_4.batches_myo.pdf
Untracked: output/Percent_missing_genotype_data_per_marker_4.batches_myo.pdf
Untracked: output/Proportion_matching_genotypes_before_removal_of_bad_samples_4.batches_myo.pdf
Untracked: output/genotype_error_marker_4.batches_myo.pdf
Untracked: output/genotype_frequency_marker_4.batches_myo.pdf
Unstaged changes:
Modified: analysis/index_5.batches.Rmd
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in the table below to view the files as they were in that past version.
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| Rmd | 1da01c0 | Belinda Cornes | 2023-01-09 | Start workflowr project. |
| Rmd | b385379 | Belinda Cornes | 2023-01-08 | Start workflowr project. |
| html | 409c35e | Belinda Cornes | 2022-04-10 | analysis for 5 batches htmls + figures |
| Rmd | 2d6f369 | Belinda Cornes | 2022-04-05 | Start workflowr project. |
| Rmd | d43c91c | Belinda Cornes | 2022-03-31 | Start workflowr project. |
| Rmd | bc33efa | Belinda Cornes | 2022-03-29 | Start workflowr project. |
| html | a4d66b5 | Belinda Cornes | 2022-03-15 | Build site. |
| Rmd | 93afca9 | Belinda Cornes | 2022-03-15 | updated binary qtl |
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| Rmd | 46d3df1 | Belinda Cornes | 2022-03-09 | no xcovar or kinship |
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| Rmd | 2d3ed78 | Belinda Cornes | 2022-02-25 | removing disproportionate markers |
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| 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 |
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| 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. |
Mapping and identifying genes uniquely contributing to immune check point inhibitor (ICI) induced autoimmunity complications
R version 4.2.2 (2022-10-31)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur ... 10.16
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] ggrepel_0.9.2 qtlcharts_0.16 qtl2_0.30 broman_0.80
[5] ggplot2_3.4.0 tibble_3.1.8 readxl_1.4.1 cluster_2.1.4
[9] dplyr_1.0.10 optparse_1.7.3 mclust_6.0.0 tidyr_1.2.1
[13] data.table_1.14.6 knitr_1.41 kableExtra_1.3.4 workflowr_1.7.0
loaded via a namespace (and not attached):
[1] Rcpp_1.0.9 svglite_2.1.0 getPass_0.2-2 ps_1.7.2
[5] assertthat_0.2.1 rprojroot_2.0.3 digest_0.6.30 utf8_1.2.2
[9] R6_2.5.1 cellranger_1.1.0 RSQLite_2.2.19 evaluate_0.18
[13] httr_1.4.4 pillar_1.8.1 rlang_1.0.6 rstudioapi_0.14
[17] blob_1.2.3 whisker_0.4.1 callr_3.7.3 jquerylib_0.1.4
[21] rmarkdown_2.18 qtl_1.54 webshot_0.5.4 stringr_1.5.0
[25] bit_4.0.5 munsell_0.5.0 compiler_4.2.2 httpuv_1.6.6
[29] xfun_0.35 pkgconfig_2.0.3 systemfonts_1.0.4 htmltools_0.5.3
[33] tidyselect_1.2.0 fansi_1.0.3 viridisLite_0.4.1 withr_2.5.0
[37] later_1.3.0 grid_4.2.2 jsonlite_1.8.4 gtable_0.3.1
[41] lifecycle_1.0.3 DBI_1.1.3 git2r_0.30.1 magrittr_2.0.3
[45] scales_1.2.1 cli_3.4.1 stringi_1.7.8 cachem_1.0.6
[49] fs_1.5.2 promises_1.2.0.1 getopt_1.20.3 xml2_1.3.3
[53] bslib_0.4.1 generics_0.1.3 vctrs_0.5.1 tools_4.2.2
[57] bit64_4.0.5 glue_1.6.2 purrr_0.3.5 parallel_4.2.2
[61] processx_3.8.0 fastmap_1.1.0 yaml_2.3.6 colorspace_2.0-3
[65] rvest_1.0.3 memoise_2.0.1 sass_0.4.4