Last updated: 2022-04-27
Checks: 5 2
Knit directory: cTWAS_analysis/
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|---|---|
| /project2/xinhe/shengqian/cTWAS/cTWAS_analysis/data/SCZ/ | data/SCZ |
| /project2/xinhe/shengqian/cTWAS/cTWAS_analysis/data/SCZ_2014_EUR/ | data/SCZ_2014_EUR |
| /project2/xinhe/shengqian/cTWAS/cTWAS_analysis/data/SCZ_2018/ | data/SCZ_2018 |
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[1] "# genes in axon: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in ion_channel_complex: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in nervous_system_development: 1 (P-value: 0.982, Odds Ratio: 0.239)"
[1] "# genes in neuronal_cell_body: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in regulation_of_cation_channel_activity: 1 (P-value: 0.173, Odds Ratio: 6.391)"
[1] "# genes in regulation_of_neuron_differentiation: 2 (P-value: 0.043, Odds Ratio: 7.303)"
[1] "# genes in somatodendritic_compartment: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in synapse: 1 (P-value: 0.925, Odds Ratio: 0.382)"
[1] "# genes in voltage-gated_calcium_channel_activity: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in SCHEMA_genes: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in ASD_genes: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in DDD_genes: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in PGC3_genes: 6 (P-value: 0, Odds Ratio: 75.039)"
[1] "# genes in PGC3_genes_without_SMR: 0 (P-value: 1, Odds Ratio: 0)"[1] "# genes in axon: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in ion_channel_complex: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in nervous_system_development: 2 (P-value: 0.885, Odds Ratio: 0.532)"
[1] "# genes in neuronal_cell_body: 2 (P-value: 0.291, Odds Ratio: 1.982)"
[1] "# genes in regulation_of_cation_channel_activity: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in regulation_of_neuron_differentiation: 2 (P-value: 0.086, Odds Ratio: 4.69)"
[1] "# genes in somatodendritic_compartment: 2 (P-value: 0.423, Odds Ratio: 1.446)"
[1] "# genes in synapse: 1 (P-value: 0.89, Odds Ratio: 0.451)"
[1] "# genes in voltage-gated_calcium_channel_activity: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in SCHEMA_genes: 1 (P-value: 0.135, Odds Ratio: 9.176)"
[1] "# genes in ASD_genes: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in DDD_genes: 1 (P-value: 0.422, Odds Ratio: 1.955)"
[1] "# genes in PGC3_genes: 5 (P-value: 0, Odds Ratio: 25.562)"
[1] "# genes in PGC3_genes_without_SMR: 0 (P-value: 1, Odds Ratio: 0)"[1] "# genes in axon: 1 (P-value: 0.71, Odds Ratio: 0.827)"
[1] "# genes in ion_channel_complex: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in nervous_system_development: 3 (P-value: 0.856, Odds Ratio: 0.62)"
[1] "# genes in neuronal_cell_body: 2 (P-value: 0.323, Odds Ratio: 1.826)"
[1] "# genes in regulation_of_cation_channel_activity: 2 (P-value: 0.124, Odds Ratio: 3.695)"
[1] "# genes in regulation_of_neuron_differentiation: 1 (P-value: 0.224, Odds Ratio: 4.724)"
[1] "# genes in somatodendritic_compartment: 2 (P-value: 0.499, Odds Ratio: 1.235)"
[1] "# genes in synapse: 4 (P-value: 0.17, Odds Ratio: 1.989)"
[1] "# genes in voltage-gated_calcium_channel_activity: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in SCHEMA_genes: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in ASD_genes: 0 (P-value: 1, Odds Ratio: 0)"
[1] "# genes in DDD_genes: 1 (P-value: 0.345, Odds Ratio: 2.618)"
[1] "# genes in PGC3_genes: 6 (P-value: 0, Odds Ratio: 31.867)"
[1] "# genes in PGC3_genes_without_SMR: 1 (P-value: 0.155, Odds Ratio: 7.874)"[1] "# genes in axon: 5 (P-value: 0.059, Odds Ratio: 2.672)"
[1] "# genes in ion_channel_complex: 4 (P-value: 0.021, Odds Ratio: 4.658)"
[1] "# genes in nervous_system_development: 11 (P-value: 0.191, Odds Ratio: 1.43)"
[1] "# genes in neuronal_cell_body: 3 (P-value: 0.266, Odds Ratio: 1.792)"
[1] "# genes in regulation_of_cation_channel_activity: 3 (P-value: 0.054, Odds Ratio: 4.225)"
[1] "# genes in regulation_of_neuron_differentiation: 3 (P-value: 0.011, Odds Ratio: 9.532)"
[1] "# genes in somatodendritic_compartment: 5 (P-value: 0.174, Odds Ratio: 1.813)"
[1] "# genes in synapse: 8 (P-value: 0.047, Odds Ratio: 2.22)"
[1] "# genes in voltage-gated_calcium_channel_activity: 2 (P-value: 0.006, Odds Ratio: Inf)"
[1] "# genes in SCHEMA_genes: 2 (P-value: 0.068, Odds Ratio: 6.282)"
[1] "# genes in ASD_genes: 1 (P-value: 0.421, Odds Ratio: 2.069)"
[1] "# genes in DDD_genes: 3 (P-value: 0.067, Odds Ratio: 3.799)"
[1] "# genes in PGC3_genes: 7 (P-value: 0, Odds Ratio: 23.363)"
[1] "# genes in PGC3_genes_without_SMR: 2 (P-value: 0.006, Odds Ratio: Inf)"
sessionInfo()R version 4.1.0 (2021-05-18)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Scientific Linux 7.4 (Nitrogen)
Matrix products: default
BLAS/LAPACK: /software/openblas-0.3.13-el7-x86_64/lib/libopenblas_haswellp-r0.3.13.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] readxl_1.3.1 reactable_0.2.3 workflowr_1.6.2
loaded via a namespace (and not attached):
[1] Rcpp_1.0.7 cellranger_1.1.0 pillar_1.6.1 compiler_4.1.0
[5] bslib_0.2.5.1 later_1.2.0 jquerylib_0.1.4 git2r_0.28.0
[9] highr_0.9 tools_4.1.0 digest_0.6.27 jsonlite_1.7.2
[13] evaluate_0.14 lifecycle_1.0.0 tibble_3.1.2 pkgconfig_2.0.3
[17] rlang_0.4.11 crosstalk_1.1.1 yaml_2.2.1 xfun_0.24
[21] reactR_0.4.4 stringr_1.4.0 knitr_1.33 fs_1.5.0
[25] vctrs_0.3.8 sass_0.4.0 htmlwidgets_1.5.3 rprojroot_2.0.2
[29] data.table_1.14.0 glue_1.4.2 R6_2.5.0 fansi_0.5.0
[33] rmarkdown_2.9 magrittr_2.0.1 whisker_0.4 promises_1.2.0.1
[37] ellipsis_0.3.2 htmltools_0.5.1.1 httpuv_1.6.1 utf8_1.2.1
[41] stringi_1.6.2 crayon_1.4.1