epitopefindr 1.1.31 (2024-05-03)

Major changes

updated various functions for comapibility with modern R (R 4.3.x, tidytable_0.10.2)

epitopefindr 1.1.30 (2020-09-19)

Minor changes

Keep blast alignment table as data.table::data.table to fix changes in R 4.0
changed pdf merge default to pdfuniter to get around rJava issue

epitopefindr 1.1.29 (2020-05-30)

Minor changes

Specify remote sources for Bioconductor and Github package dependencies.

epitopefindr 1.1.28 (2020-05-07)

Minor changes

multiple sequence alignment consensus sequence defaults changed. Consensus sequence type = "upperlower", thresh = c(100, 50). See ?msa::msaConsensusSequence for more information.

epitopefindr 1.1.27 (2020-05-06)

Minor changes

epitopeSummary output table sorting modification. group number coerced to numeric.

epitopefindr 1.1.26

Breaking changes

output table changes (fixed bug with epitope_summary$id number of rows mismatch, outputTable() function now returns a list with epitope_key and epitope_summary tables as elements, epfind() writes csvs with "NA" to fill empty cells)

Minor changes

added parameter remove.intermediates = FALSE to epfind(). If set to true, then the /intermediate_files/ folder is deleted from epitopefindr's output directory at the end of the run.

epitopefindr 1.1.25

Minor changes

Added support for command line utility pdfunite as an alternative to pdftk.
Removed some defunct code and comments.
Beginnings of framework for parallelization.