# protr 0.1-0 (2012-11-18)

## NEW FEATURES

  * First release
  * First version of Amino Acid Composition descriptor
  * First version of Dipeptide Composition descriptor
  * First version of Tripeptide Composition descriptor
  * First version of Normalized Moreau-Broto Autocorrelation descriptor
  * First version of Moran Autocorrelation descriptor
  * First version of Geary Autocorrelation descriptor
  * First version of CTD - Composition descriptor
  * First version of CTD - Transition descriptor
  * First version of CTD - Distribution descriptor
  * First version of Conjoint Triad descriptor
  * First version of Sequence Order Coupling Number descriptor
  * First version of Quasi-Sequence-Order descriptor
  * First version of Pseudo Amino Acid Composition descriptor
  * First version of Amphiphilic Pseudo Amino Acid Composition descriptor
  * First version of `readFASTA()`
  * First version of `getUniProt()`
  * First version of `protcheck()`
  * First version of `protseg()`

# protr 0.2-0 (2013-12-10)

## NEW FEATURES

  * second release
  * added Proteochemometric (PCM) Modeling descriptors, parallellized similarity computation derived by protein sequence alignment and Gene Ontology (GO) semantic similarity measures between a list of protein sequences / GO terms / Entrez Gene IDs
  * added misc tools and datasets
  * initial version of Scales-Based Descriptors derived by Principal Components Analysis
  * initial version of Scales-Based Descriptors derived by AA-Properties (AAindex)
  * initial version of Scales-Based Descriptors derived by 20+ classes of 2D and 3D Molecular Descriptors
  * initial version of Scales-Based Descriptors derived by Factor Analysis
  * initial version of Scales-Based Descriptors derived by Multidimensional Scaling
  * initial version of BLOSUM and PAM Matrix-Derived Descriptors
  * initial version of parallelized pairwise similarity calculation with a list of protein sequences
  * initial version of pairwise semantic similarity calculation with a list of GO terms / Entrez Gene IDs
  * initial version of Auto Cross Covariance (ACC) for generating scales-based descriptors of the same length
  * introducing ProtWeb, the web service based on protr: http://protr.org

# protr 0.2-1 (2014-01-25)

## IMPROVEMENTS

  * Added LICENSE file according to CRAN policies

# protr 0.3-0 (2014-06-20)

## IMPROVEMENTS

  * Added example workflow using protr in the vignette

# protr 0.4-0 (2014-09-20)

## NEW FEATURES

  * Added profile-based descriptors derived by PSSM

# protr 0.4-1 (2014-10-10)

## IMPROVEMENTS

  * General documentation improvements

# protr 0.5-0 (2014-12-18)

## IMPROVEMENTS

  * Added functions allowing users to specify their own classification of the amino acid
  * Documentation improvements
  * Other minor improvements

# protr 0.5-1 (2014-12-22)

## IMPROVEMENTS

  * Minor improvements and fixes for documentation

# protr 1.0-1 (2015-11-26)

## BUG FIXES

  * General improvements for dealing with boundary cases in several functions (thanks for @koefoed's patches)
  
## IMPROVEMENTS
  
  * Added citation information

# protr 1.1-0 (2015-12-28)

## BUG FIXES

  * Bug fix in `extractCTDD()`

# protr 1.1-1 (2015-12-29)

## BUG FIXES

  * Fix URLs that cannot be accessed by `curl -I -L`:
    1. Use http://protr.org
    2. Remove all inaccessible URLs

# protr 1.2-0 (2016-11-12)

## IMPROVEMENTS

  * Added continuous integration
  * Code style improvements
