GitHub - hsaxe/SCRI_ROOT_R: R Code for analysis of RNA-seq data

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R Code for analysis of RNA-seq data

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Name		Name	Last commit message	Last commit date
Latest commit History 79 Commits
Biological_Process_KS_results		Biological_Process_KS_results
Chromosome_KS_results		Chromosome_KS_results
DGEresults		DGEresults
Final_Figs_and_Draft_Manuscript_SCRI_ROOT		Final_Figs_and_Draft_Manuscript_SCRI_ROOT
Full_GO_BP_Annotation		Full_GO_BP_Annotation
GO_Enrichment		GO_Enrichment
GO_results_SCRI_ROOT_RNAseq_files/figure-gfm		GO_results_SCRI_ROOT_RNAseq_files/figure-gfm
GOresults		GOresults
Jm3101_v1.0_and_Walnut_2.0_ref_files/figure-gfm		Jm3101_v1.0_and_Walnut_2.0_ref_files/figure-gfm
Old code		Old code
QTL_Peaks_results		QTL_Peaks_results
SCRI_Phenotype_Analysis		SCRI_Phenotype_Analysis
SCRI_ROOT_RNAs_files		SCRI_ROOT_RNAs_files
Subcell_KS_analysis_files/libs		Subcell_KS_analysis_files/libs
Subcell_KS_results		Subcell_KS_results
Subcell_results		Subcell_results
checkbox		checkbox
rsconnect/documents/SCRI_ROOT_RNAs.qmd/rpubs.com/rpubs		rsconnect/documents/SCRI_ROOT_RNAs.qmd/rpubs.com/rpubs
.gitignore		.gitignore
Biological_process_KS_analysis.qmd		Biological_process_KS_analysis.qmd
Chromosome_KS_analysis.qmd		Chromosome_KS_analysis.qmd
EBH_KS_analysis.qmd		EBH_KS_analysis.qmd
EBH_Plotting_Jm3101_v1.0_and_Walnut_2.0_ref.R		EBH_Plotting_Jm3101_v1.0_and_Walnut_2.0_ref.R
EBH_analysis.qmd		EBH_analysis.qmd
Extra_code_DE_analysis.R		Extra_code_DE_analysis.R
GO_results_SCRI_ROOT_RNAseq.R		GO_results_SCRI_ROOT_RNAseq.R
GO_results_SCRI_ROOT_RNAseq.md		GO_results_SCRI_ROOT_RNAseq.md
Jm3101_v1.0_and_Walnut_2.0_ref.R		Jm3101_v1.0_and_Walnut_2.0_ref.R
Jm3101_v1.0_and_Walnut_2.0_ref.md		Jm3101_v1.0_and_Walnut_2.0_ref.md
Jm3101_v1.0_and_Walnut_2.0_ref.qmd		Jm3101_v1.0_and_Walnut_2.0_ref.qmd
Make Citations.R		Make Citations.R
Make Citations.Rmd		Make Citations.Rmd
Make_GO_and_Subcell_Results_Workbook.R		Make_GO_and_Subcell_Results_Workbook.R
Make_GO_and_Subcell_Results_Workbook.Rmd		Make_GO_and_Subcell_Results_Workbook.Rmd
Make_GO_and_Subcell_Results_Workbook.qmd		Make_GO_and_Subcell_Results_Workbook.qmd
QTL_peaks_analysis.qmd		QTL_peaks_analysis.qmd
SCRI_RNAs.bib		SCRI_RNAs.bib
SCRI_ROOT.Rproj		SCRI_ROOT.Rproj
SCRI_ROOT_RNAs.html		SCRI_ROOT_RNAs.html
SCRI_ROOT_RNAs.qmd		SCRI_ROOT_RNAs.qmd
Subcell_KS_analysis.html		Subcell_KS_analysis.html
Subcell_KS_analysis.qmd		Subcell_KS_analysis.qmd
Subcellular_Localization_Analysis.R		Subcellular_Localization_Analysis.R
Wrangling_SCRI_Root_Phenotype_Data_2.Rmd		Wrangling_SCRI_Root_Phenotype_Data_2.Rmd
parse_GO_results.ipynb		parse_GO_results.ipynb
test.bib		test.bib