Files in mkajano/HDXBoxeR
Analysis of Hydrogen-Deuterium Exchange Mass-Spectrometry Data
.Rbuildignore
.gitignore
DESCRIPTION
HDXBoxeR.Rproj
NAMESPACE
R/CI.R
R/CI_single.R
R/CI_tc.R
R/Extreme_input_prep.R
R/Extreme_input_prep_undeut.R
R/Woods_uptake_plots_internal_functions.R
R/arg_df.R
R/arguments_call.R
R/av_timecourse_plots.R
R/av_timepoint_proc_plots.R
R/ave_sd_timecourse_proc.R
R/ave_sd_timecourses.R
R/backexchange_calculation.R
R/color_Spectral_pallette.R
R/colors_pallettes.R
R/data.Rd
R/deuteration_woods_plots.R
R/getCoords.R
R/global.R
R/inside_functions_plot.R
R/is.nan.data.frame.R
R/legend_heat_map_tc.R
R/legend_tc_bottom.R
R/nm_states.R
R/output_UD_FD.R
R/output_prep.R
R/output_tp_def.R
R/pallette_heatmap_legend.R
R/plot_ave_tp.R
R/plot_boxplot.R
R/plot_diff_tp.R
R/plot_diff_tp_proc.R
R/plot_heat_map_max_uptake.R
R/plot_heat_map_max_uptake_proc.R
R/plot_heat_map_tc.R
R/plot_heat_map_tp.R
R/plot_heat_map_tp_proc.R
R/plot_peptide_sig_tp_proc.R
R/plot_significant_peptides.R
R/plots_volcano.R
R/ppar.R
R/prep_info_functions.R
R/prep_timecourse_functions.R
R/pv_timecourse.R
R/pymol_script_average_residue.R
R/pymol_script_significant_peptide.R
R/pymol_script_significant_peptide_proc.R
R/pymol_script_significant_residue_proc.R
R/pymol_str.R
R/pymol_str_significant_residue.R
R/qpcr.cbind.na.R
R/ranges_functions.R
R/rbind.na.R
R/robot_2states_indexes.R
R/robot_indexes_df.R
R/robot_plot_All.R
R/sd_ave_diff_pv_tp.R
R/select_indices.R
R/summary_CI_sdev.R
R/summary_all.R
R/timecourse_output_def.R
R/uptake_plots.R
R/verbose_output_timecourse.R
R/verbose_output_tp_csv.R
README.md
inst/CITATION
inst/extdata/0001-0014-MQIFVKTLTGKTIT/0.000000s-1-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/20h-1-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/20h-2-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/20h-3-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/30m-1-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/30m-2-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/30m-3-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/3s-1-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/3s-2-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/3s-3-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/60s-1-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/60s-2-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/60s-3-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/Full-D-1-z2.csv
inst/extdata/0001-0014-MQIFVKTLTGKTIT/Non-D-1-z2.csv
inst/extdata/All_results_table.csv
man/CI_2pts.Rd
man/CI_single.Rd
man/CI_tc.Rd
man/CI_tp.Rd
man/all_summary.Rd
man/arg_UN_FD.Rd
man/arg_df.Rd
man/arguments_call1.Rd
man/arguments_call2.Rd
man/arguments_call3.Rd
man/av_tc.Rd
man/av_tp.Rd
man/ave_timepoint.Rd
man/average_timecourse.Rd
man/backHX_calculations.Rd
man/boxplot_tp.Rd
man/color_ranges_Blue_Red_heat_map.Rd
man/color_ranges_Spectral.Rd
man/coverage_residue.Rd
man/deuteration_woods_timecourse.Rd
man/deuteration_woods_timepoints.Rd
man/dif_ave.Rd
man/dif_tp.Rd
man/dif_tp_proc.Rd
man/duplicate_sets.Rd
man/extreme_input_gap.Rd
man/extreme_input_undeut.Rd
man/general_info.Rd
man/getCoords1.Rd
man/heat_map_tc.Rd
man/heat_map_tp.Rd
man/heat_map_tp_maxuptake.Rd
man/heat_map_tp_maxuptake_proc.Rd
man/heat_map_tp_proc.Rd
man/is.nan.data.frame.Rd
man/lab_dif.Rd
man/lab_dif_proc.Rd
man/lab_vol.Rd
man/legend_heat_map.Rd
man/legend_heat_map_tc.Rd
man/legend_heat_map_timecourse.Rd
man/legend_heat_map_tp.Rd
man/legend_heat_map_tp_proc.Rd
man/legend_nm_bottom.Rd
man/legend_raw_ave.Rd
man/legend_raw_ave_proc.Rd
man/legend_raw_ave_tc.Rd
man/legend_sig_peptides.Rd
man/legend_states_PerD_bottom.Rd
man/legend_tc_bottom.Rd
man/nm_states.Rd
man/output_FD.Rd
man/output_FD_proc.Rd
man/output_UD.Rd
man/output_UD_proc.Rd
man/output_prep.Rd
man/output_tc.Rd
man/output_tp.Rd
man/pallette_legend.Rd
man/pallette_ll.Rd
man/peptide_pv_tp.Rd
man/peptide_pv_tp_proc.Rd
man/pl_gen_ch2.Rd
man/pl_gen_uptake.Rd
man/plot_heat_map_max_uptake_tp.Rd
man/plot_heat_map_max_uptake_tp_proc.Rd
man/plot_heat_map_tc.Rd
man/plot_heat_map_tp.Rd
man/plot_heat_map_tp_proc.Rd
man/plot_peptide_sig_tp.Rd
man/plot_peptide_sig_tp_proc.Rd
man/plots_av_tcourse.Rd
man/plots_av_tp.Rd
man/plots_av_tp_proc.Rd
man/plots_diff_tp.Rd
man/plots_diff_tp_proc.Rd
man/plots_vol_tp.Rd
man/ppar.Rd
man/pparLM.Rd
man/ppar_bottom_legend.Rd
man/ppar_wider.Rd
man/prep_timecourse_plot_ave.Rd
man/prep_timecourse_plot_sd.Rd
man/pv_timecourse.Rd
man/pv_timepoint.Rd
man/pymol_script_average_residue.Rd
man/pymol_script_significant_peptide.Rd
man/pymol_script_significant_peptide_proc.Rd
man/pymol_script_significant_residue.Rd
man/pymol_script_significant_residue_proc.Rd
man/pymol_str.Rd
man/qpcr.cbind.na.Rd
man/ranges_function.Rd
man/ranges_function_tc.Rd
man/rbind_na.Rd
man/reset_par.Rd
man/robot_2states_indexes.Rd
man/robot_indexes.Rd
man/robot_indexes_df.Rd
man/robot_plot_All.Rd
man/sd_timecourse.Rd
man/sd_timecourse_proc.Rd
man/sd_timepoint.Rd
man/select_indices.Rd
man/significant_peptide_uptake.Rd
man/summary_sd_CI.Rd
man/uptake_plots.Rd
man/verbose_timecourse_output.Rd
man/verbose_timepoint_output.Rd
man/vol_tp.Rd
man/woods_CI_plot.Rd
vignettes/HDXBoxeR.Rmd
vignettes/figures/example_table.png
vignettes/figures/max_uptake_ave_uptake.png
vignettes/rsconnect/documents/HDXBoxeR.Rmd/rpubs.com/rpubs/Document.dcf
