# CHANGES in BIOdry 0.9.1  

- Fixed missing Rd \link{} targets by providing package anchors for:  
  - `anova.modelFrame.Rd`: linked `anova.lme` to the **nlme** package.  
  - `frametoLme.Rd`: linked `lme`, `nlme`, and `groupedData` to **nlme**.  
  - `lmeForm.Rd`: linked `groupedData` to **nlme**.  
  - `modelFrame.Rd`: linked `lme`, `nlme`, and `groupedData` to **nlme**.  
  - `muleMan.Rd`: linked `groupedData` to **nlme**, `mgram` to **ecodist**, and `ecodist` correctly.  
  - `shiftFrame.Rd`: linked `groupedData` to **nlme**.  
  - `summary.modelFrame.Rd`: linked `summary.lme` to **nlme**.  

## New in BIOdry 0.9  
- Added labels to items in three files: `Pchron.Rd`, `Prec.Rd`, and `Temp.Rd`.  

## New in BIOdry 0.8  
- **Changes in `shiftFrame`**: The internal implementation of `data.frame()` now uses `stringsAsFactors = TRUE`.  

## New in BIOdry 0.7  
- Fixed convergence errors.  

## New in BIOdry 0.6  
- Updated function examples to resolve convergence errors.  

## New in BIOdry 0.5  
1. Developed five new **S3 methods**:  
   - `anova.modelFrame`  
   - `plot.modelFrame`  
   - `plot.muleMan`  
   - `plot.wlai`  
   - `summary.modelFrame`  
   *(See package documentation.)*  

2. **Changes in `modelFrame`**:  
   - Now supports two formats of dendroclimatic records: dendroclimatic chronologies and multilevel data series.  
   - Improved implementation examples.  

3. **Changes in `muleMan`**:  
   - Improved implementation examples.  

4. **New binary datasets** added to `data/` folder:  
   - `Pchron.RData`, `Prec.RData`, and `Temp.RData` (contain dendroclimatic chronologies).  

5. **New function `mUnits`**: Converts metric units in dendroclimatic chronologies.  

6. **Changes in `amod`**:  
   - Improved routines for allometric scaling.  

7. **New function `cClclass`**:  
   - Replaces the old `colclass` function.  

## Changes in BIOdry 0.4  
1. **Changes in `tdForm`**:  
   - Fixed incorrect formulation of the time-decline form.  

2. **Changes in `ringLme`**:  
   - This function was replaced by `frametoLme()` to improve `lme` implementation from the **nlme** package.  

## Changes in BIOdry 0.3  
1. **Changes in `shiftFrame`**:  
   - Updated algorithm to shift ring-data frames into multilevel data frames, fixing an internal error in R < 3.2.0.  
   - Added new default argument:  
     ```r
     lev.nm = c("plot", "tree", "sample")
     ```  
     This argument provides names for the factor-level columns in reshaped multilevel data frames.  

2. **Changes in `muleMan`**:  
   - Output is now a `groupedData` object.  
   - Removed the default plot in the output.  
   - Removed two default plot arguments:  
     - `plot.man = TRUE`  
     - `psig = 0.05`  
   - Users can now plot the `groupedData` object using other trellis-graph functions. *(See function examples.)*  
