NEWS.md

In brandonsie/epitopefindr: Minimal Overlaps from BLAST Alignments

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.

brandonsie/epitopefindr documentation built on May 4, 2024, 10:27 a.m.