Man pages for PDXChris/pmtools
Tools for Working with PAWMAP Data
| addCycle | Calculate the PAWMAP cycle based on sampling date |
| addFishTraits | Add fish traits to a data frame of fish counts |
| collidev | Allow vertical dodging in ggplot |
| create_Panel_Table | Create table of PAWMAP sampling years, panels and cycles |
| dot-simpleCap | A Set of Miscellaneous Functions for Working with Data. |
| dropAmphibs | Drop Amphibians from a data frame of fish names |
| fish.traits | Fish traits table |
| fitStats | Create text summarizing regression fit |
| formSubstrate | Load and format PAWMAP substrate data |
| gmean | Calculate the geometric mean |
| loadPMdat | Load PAWMAP data |
| meansByWat | Summarize PAWMAP data by watershed |
| mergeStatInfo | Merge PAWMAP station information into a data frame. |
| met.cod | Metric codes, names, units, etc for PAWMAP variables. |
| norm.plot | Plot a variable and test for normality |
| panel.cor | A Panel Function for Pairs to Add Correlation Coefficients |
| plotBio_ByWat | Plot A GGplot jitter plot of a biological metric by watershed |
| plotBio_InWat | Plot PAWMAP biological metrics within a selected watershed. |
| plotCDF_byWat | Plot Empirical Cumulative Distribution Plots of PAWMAP data... |
| plotDens | Plot Density of a Variable |
| plotFishSpp | Plot PAWMAP Fish Species Composition Data. |
| plotGGjitt_ByWat | Plot A GGplot Jitter plot by Watershed |
| plotHab_ByWat | Plot PAWMAP habitat data by watershed. |
| plotHab_InWat | Plot PAWMAP Habitat Data within a selected watershed. |
| plotIbi_InWat | Plot PAWMAP Fish Data within a selected watershed. |
| plotRespVsPred | Plot Correlations of Predictors vs. a Response |
| plotSubstrate | Plot PAWMAP substrate data |
| plotWQ_byCycle | Plot PAWMAP water quality data by watershed. |
| plotWQ_byWat | Plot PAWMAP water quality data by watershed. |
| plotWQ_InWat | Plot PAWMAP Water Quality Data for each station within a... |
| pos_fillv | Stack overlapping intervals and set height to 1. Assumes that... |
| position_dodgev | Adjust position by dodging overlaps to the side. |
| pos_stackv | Stack overlapping intervals. Assumes that each set has the... |
| queryFishEvents | Query number of PAWMAP fish surveys and transects at each... |
| removeNotFished | Remove fish surveys that were not attempted |
| runFishIbi | Calculate Fish Index of Biotic Integrity scores |
| selectFishFields | Choose & format the fields to keep in fish survey data |
| statByStation | Calculate summary statistic by station |
| stationInfo | Information on PAWMAP Monitoring Stations. |
| std.lns | Standard values for plotting |
| stLook | Look up information on a station by number |
| substCritList | List stations exceeding substrate criteria |
| substCritStat | Compile total exceedances of substrate criteria by watershed |
| sumFishSurvTrans | Summarize total fish surveys and transects |
| tallyFishSpp | Tally PAWMAP Fish Species Composition Data. |
