Files in SGDDNB/CLIPreg
Analyze and generate figures for enrichment of RBP targets and miRNA targets.
.Rbuildignore
.gitignore
CLIPreg.Rproj
DESCRIPTION
Example/Example_deltaTE.R
Example/HeLa_EGF_Ribo_TPM.csv
Example/HeLa_EGF_TE.csv
Example/HeLa_EGF_raw_counts.csv
Example/HeLa_EGF_ribo_lfc.csv
Example/data_processing.R
NAMESPACE
R/BubbleRBPs.R
R/CLIPreg.R
R/Draw_network.R
R/Draw_network_by_group.R
R/GetTarget.R
R/HeatmapRBP.R
R/Heatmap_no_fold_change.R
R/Load_files.R
R/Plot_GO.R
R/Plot_GO_RBP.R
R/Plot_GO_node_name.R
R/Visualise.R
R/deltaTE_gene_groups.R
R/load_functions.R
R/run_CLIPreg.R
README.Rmd
README.md
data/Example_bed.RData
data/RBP_ENCODE.RData
data/RBP_POSTAR.RData
data/Res_Encode_HeLa.RData
data/Res_Postar_HeLa.RData
data/Res_miR.RData
data/Res_miR_HeLa_EGF.RData
data/gene_groups.RData
data/gene_groups_HeLa_EGF.RData
data/miR_data.RData
data/miR_info.RData
data/res_Encode.RData
data/res_Postar.RData
data/ribo_lfc.RData
data/ribo_lfc_HeLa_EGF.RData
data/tpm_all_RNA.RData
data/tpm_all_RNA_HeLa_EGF.RData
data/tpm_ribo.RData
data/tpm_ribo_HeLa_EGF.RData
man/BubbleRBPs.Rd
man/CLIPreg.Rd
man/Draw_network.Rd
man/Draw_network_by_group.Rd
man/GetTarget.Rd
man/HeatmapRBP.Rd
man/Load_example.Rd
man/Load_input_files.Rd
man/Plot_GO.Rd
man/Plot_GO_RBP.Rd
man/Plot_GO_node_name.Rd
man/Visualise.Rd
man/combine.Rd
man/combine_targets.Rd
man/cure_res.Rd
man/figures/README-Bubble plot-1.png
man/figures/README-GO of specific nodes-1.png
man/figures/README-GO of specific nodes-2.png
man/figures/README-GO of specific nodes-3.png
man/figures/README-Generate heatmap-1.png
man/figures/README-Network-1.png
man/figures/README-Scipt for miRNA heatmap-1.png
man/figures/README-Scipt for miRNA plots-1.png
man/figures/README-Scipt for miRNA plots-2.png
man/figures/README-plots HeLa RBP-1.png
man/load_gene_groups.Rd
man/load_ribo_lfc.Rd
man/load_ribo_tpm.Rd
man/rbp_change.Rd
man/run_CLIPreg.Rd
