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Issues (1–25 of 39)

Title T P Status Votes Assignee Milestone Created Updated Actions
#39: Error in findNovelAlleles(db, germline_db = ighv, nproc = 2)
bug major resolved
#38: inferGenotypeBayesian example in the Vignette generates incorrect output
bug major new
#37: Document how to incorporate sequencing quality into the workflow of finding novel alleles
enhancement minor new
#36: Tigger alleles not found
bug major resolved
#31: Inconsistency in novel allele between genotype plot and evidence plot
enhancement major open
#25: Can updateAlleleNames be removed?
proposal major open
#23: `GermlineIGHV` contains an allele that is not found in IMGT reference
bug minor resolved
#30: install_dep.R finds two versions of alakazam, warns version could not be detected then test server set up fails
bug major resolved
#22: Novel alleles should maintain dots for IMGT-gaps
bug major resolved
#21: Update example data with new columns
enhancement trivial resolved
#16: Add to inferGenotype output table info from findNovelAlleles output
enhancement major resolved
#19: Add an argument to inferGenotype to use the bayesian method
proposal major resolved
#15: Extend TIgGER beyond nt 312 (316, 319?)
proposal minor wontfix
#12: Modify reassignAlleles to output a db
enhancement major resolved
#14: weird warning message when running `reassignAlleles()`
bug minor resolved
#9: Temporary workaround for weird dplyr bug
bug major resolved
#11: inferNovelAlleles multiprocessing fails
bug major resolved
#3: sortAlleles
bug minor resolved
#1: Low Sequence Counts
enhancement minor wontfix
#5: Newline character horror
bug minor resolved
#8: Few lingering check issue
bug major resolved
#6: R CMD check issues
bug major resolved
#2: Outstanding `R CMD check` errors, warnings and relevant notes.
bug minor resolved
#35: inferGenotype should check if columns seq and v_call exist
task minor resolved
#34: Improve documentation for j_max in findNovelAlleles
task minor resolved
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