# AssessORF 1.7

Changes in version 1.7.1 (2020-10-23)
* Genome viewer plots will now show the forward strand above the reverse strand, and reading frames will now be laid out in 1 through 6 order moving down the genome viewer (before it was reversed)

Changes in version 1.7.0 (2020-10-21)
* Can now toggle interactivity of the genome viewer when plotting Assessment objects
* Can now zoom into an initial range with the genome viewer when plotting Assessment objects
* Documented the genome viewer in the plot.Assessment man page
* Added a genome viewer example to the vignette
* Fixed a bug that was causing an error when users attempted to zoom out ten-fold with the genome viewer plot

# AssessORF 1.3

Changes in version 1.3.1 (2019-10-22)
* Data for six new strains, S. pyogenes AP1, E. coli BW25113, S. aureus HG001, L. lactis MG1363, B. subtilis NCIB 3610, and L. monocytogenes 10403S, have been added to AssessORFData 
* CITATION file added as corresponding paper has now been published
* Updated MapAssessmentData such that verbose output is cleaner and more informative

# AssessORF 1.1

Changes in version 1.1.7 (2019-04-29)
* Added a function, CompareAssessmentResults, for comparing two results objects against each other
* Added a processors parameter to MapAssessmentData for compatibility with DECIPHER functions

Changes in version 1.1.6 (2019-04-07)
* Added parameters to AssessGenes to bound the range in which to look for conserved starts that can serve as alternative options to a predicted start
* Added a parameter to AssessGenes that requires ORFs with protein evidence but no predicted start to have a certain minimum number of peptide hits in order to be included in the final output

Changes in version 1.1.5 (2019-01-11)
* Update to how conserved starts and conserved stops are utilized in AssessGenes
* Removed weighted score
* Made clarifications to the man pages
* Minor edits to the vignette

Changes in version 1.1.4 (2018-12-15)
* Updated AssessGenes to make sure predicted stops are valid for their corresponding genes, and users will be warned appropriately if a predicted stop is invalid
* Minor updates to plots
* Bug fixes on previous version's MapAssessmentData updates

Changes in version 1.1.3 (2018-11-12)
* Fixed a bug affecting coverage related to gaps in alignments in MapAssessmentData
* Used exponential moving averages to filter out bad alignment regions in MapAssessmentData

Changes in version 1.1.2
* Implemented a fix to the vignette so it builds without an internet connection

Changes in version 1.1.1
* Reduced time it takes to run MapAssessmentData examples

# AssessORF 0.99

Changes in version 0.99.22
* Added data package to Suggests list
* Tweaked connection to data package in the AssessGenes function

Changes in version 0.99.21
* Minor edits to man pages and the vignette

Changes in version 0.99.20
* Minor edits to man pages and the vignette

Changes in version 0.99.19
* NEWS file added