# SplicingFactory 1.3.1 (dev)

* Citation update
* Other minor corrections

# SplicingFactory 1.0.3 (stable)

* Bug fix for example data.
* Other minor changes.

# SplicingFactory 1.0.2 (stable)

* Bug fix for single sample analysis.

# SplicingFactory 1.0.1 (stable)

* Updates to URL, email and citation.

# SplicingFactory 0.99.21 (dev)

* Updated lists of gene names and TCGA sample IDs in
  tcga_brca_luma_dataset.RData.

# SplicingFactory 0.99.20 (dev)

* Created new dataset with another random seed in tcga_brca_luma_dataset.RData.

# SplicingFactory 0.99.19 (dev)

* Added lists of gene names and TCGA sample IDs in tcga_brca_luma_dataset.RData.

# SplicingFactory 0.99.18 (dev)

* R version update.

# SplicingFactory 0.99.17 (dev)

* Minor corrections.

# SplicingFactory 0.99.16 (dev)

* Minor corrections.

# SplicingFactory 0.99.15 (dev)

* Adjust sample dataset creating script to the use of SummarizedExperiment.

# SplicingFactory 0.99.14 (dev)

* Documentation updates.

# SplicingFactory 0.99.13 (dev)

* SummarizedExperiment input for calculate_difference.
* Changed SE_assay parameter name to assayno.
* Documentation and example updates.

# SplicingFactory 0.99.12 (dev)

* Documentation and example updates.

# SplicingFactory 0.99.11 (dev)

* SummarizedExperiment corrections.
* Vignette updates.

# SplicingFactory 0.99.10 (dev)

* SummarizedExperiment output for calculate_diversity.
* Vignette updates.
* Example dataset updates.

# SplicingFactory 0.99.9 (dev)

* Documentation and code formatting updates.

# SplicingFactory 0.99.8 (dev)

* Examples for diversity calculation functions.

# SplicingFactory 0.99.7 (dev)

* More flexible single calculate_entropy function instead of separate naive and
  Laplace entropy.
* P-value correction method can be set by user.
* Formatting corrections.

# SplicingFactory 0.99.5 (dev)

* Updated DESCRIPTION.
* Formatting corrections.
* Corrected bug in data description.
* Updated methods for obtaining class of input.
* Added verbose argument for functions.

# SplicingFactory 0.99.4 (dev)

* Code and documentation formatting corrections.
* Updates to example dataset.

# SplicingFactory 0.99.3 (dev)

* SummarizedExperiment input type updated in calculate_diversity, 
  new argument: SE_assay.

* Documentation, vignette updated.

# SplicingFactory 0.99.2 (dev)

* SummarizedExperiment input type instead of ExpressionSet.

# SplicingFactory 0.99.1 (dev)

* Correction: unnecessary file removed.

# SplicingFactory 0.99.0 (dev)

* Submitted to Bioconductor.
