NEWS.md

Version 0.4.0

New Features

• the distance() function receives a new argument use.row.names to enable passing the row names from the input probability or count matrix to the output distance matrix

Version 0.3.0

New functionality

• exporting all Rcpp distance measure functions individually (see issue #9), this enables access to much faster computations (see micro benchmarks at https://hajkd.github.io/philentropy/articles/Distances.html)

Bug fixes

• fixing bug which caused that KL distance returns NaN when P == 0 (see issue #10; Many thanks to @KaiserDominici)

• fixing bug which caused stack overflow when computing distance matrices with many rows (see issue #7; Many thanks to @wkc1986 and @elbamos)

• fixing bug in gJSD() where an rbind() input matrix is not properly transposed (Many thanks to @vrodriguezf; see issue #14)

New Features

• gJSD() receives new argument est.prob to enable empirical estimation of probability vectors from input count vectors (non-probabilistic vectors)

• Jaccard and Tanimoto similarity measures now return 0 instead of NAN when probability vectors contain zeros (Many thanks to @JonasMandel; see issue #15)

Version 0.2.0

Bug fixes

• Fixing bug that caused jensen-shannon computations to compute wrong values when 0 values were present in the input vectors (see issue #4 ; Many thanks to @wkc1986)
• Fixing bug that caused jensen-difference computations to compute wrong values when 0 values were present in the input vectors
• Fixing bugs in all distance metrics when handing 0/0, 0/x or x/0 cases

Version 0.1.0

New Features

• new message system
• extending documentation

Bug fixes

• Fixing bug that caused that JSD() gives NaN when any probability is 0 - see drostlab#1 (Thanks to William Kurtis Chang)

Version 0.0.2

Bug fixes

• Fixing C++ memory leaks in dist.diversity() and distance() when check for colSums(x) > 1.001 was peformed (leak was found with rhub::check_with_valgrind())

Version 0.0.1

Initial submission version.