bin_calculate |
Get bin averages for VPR and CTD data |
bin_cast |
Bin vpr data |
concentration_category |
Binned concentrations |
ctd_cast |
Isolate ascending or descending section of ctd cast |
ctd_dat_combine |
VPR CTD data |
ctd_df_cols |
Read CTD data (SBE49) and Fluorometer data from CTD- VPR package |
ctd_roi_merge |
VPR CTD data combined with tabulated ROIs |
ctd_roi_oce |
VPR data including CTD and ROI information |
getRoiMeasurements |
THIS FUNCTION HAS BEEN DEPRECATED |
insertRow |
INTERNAL USE ONLY quick data frame function from github to insert row inside dat frame |
isopycnal_calculate |
Get vector to draw isopycnal lines on TS plot Used internally to create TS plots |
normalize_matrix |
Normalize a matrix |
px_to_mm |
Get conversion factor for pixels to mm for roi measurements |
roimeas_dat_combine |
VPR measurement data calculated by Visual Plankton |
roi_dat_combine |
VPR ROI data |
size_df_f |
VPR size information dataframe |
taxa_conc_n |
A binned data frame of concentration data per category |
vpr_autoid_check |
Checks manually created aid files for errors |
vpr_autoid_copy |
Copy VPR images into folders |
vpr_autoid_create |
Modifies aid and aid mea files based on manual reclassification |
vpr_autoid_read |
Read VPR aid files |
vpr_category |
Get taxa ids from string |
vpr_category_create |
Create a new taxa to be considered for classification after processing with VP |
vpr_ctdroisize_merge |
Format CTD and Size data from VPR |
vpr_ctdroi_merge |
Merge CTD and ROI data from VPR |
vpr_ctd_files |
Create a list of ctd files to be read |
vpr_ctd_read |
Read and format CTD VPR data |
vpr_ctd_ymd |
Add Year/ month/ day hour:minute:second information |
vpr_day |
Get day identifier |
vpr_dayhour |
Find day & hour info to match each station of interest for processing |
vpr_hour |
Get hour identifier |
vpr_img_category |
Explore images by depth and classification |
vpr_img_check |
Remove ROI strings from aid and aidmeas files based on a manually organized folder of images |
vpr_img_copy |
Image copying function for specific taxa of interest |
vpr_img_depth |
Explore VPR images by depth bin |
vpr_img_reclassified |
Explore reclassified images |
vpr_manual_classification |
Function to check results of classification manually |
vpr_oce_create |
Create ctd oce object with vpr data |
vpr_plot_contour |
Interpolated contour plot of particular variable |
vpr_plot_histsize |
Plot size frequency histogram |
vpr_plot_profile |
Plots VPR profiles of temperature, salinity, density, fluorescence and concentration (by classification group) |
vpr_plot_sizefreq |
Size Frequency plots for VPR data |
vpr_plot_TS |
Make a balloon plot against a TS plot |
vpr_plot_TScat |
Make a balloon plot |
vpr_pred_read |
Read prediction output from a CNN model |
vpr_roi |
Get roi ids from string |
vpr_roi_concentration |
Calculate VPR concentrations |
vpr_save |
Save VPR data as an as.oce object |
vpr_size_bin |
Bin VPR size data |
vpr_summary |
Data Summary Report |
vpr_trrois_size |
Get size data from idsize files |
vp_plot_matrix |
Plots normalized confusion matrix |
vp_plot_unkn |
Function to visualize losses to unknown category due to disagreement in Dual classifier |