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  2. B Cell Repertoires
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Issues (1–25 of 39)

Title T P Status Votes Assignee Milestone Created Updated Actions
#21: Update example data with new columns
enhancement trivial resolved
#4: Allow alternate sorting for genes and subjects in plotGenotype
enhancement trivial resolved
#37: Document how to incorporate sequencing quality into the workflow of finding novel alleles
enhancement minor new
#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
#33: plotNovel documentation needs to be improved
task minor resolved
#23: `GermlineIGHV` contains an allele that is not found in IMGT reference
bug minor resolved
#29: Use alakazam::cpuCount for nproc detection
bug minor resolved
#10: Add to inferGenotype output table a column with % of the repertoire
enhancement minor resolved
#15: Extend TIgGER beyond nt 312 (316, 319?)
proposal minor wontfix
#1: Low Sequence Counts
enhancement minor wontfix
#7: Duplicate assignment 'reassignAlleles' function
bug minor resolved
#14: weird warning message when running `reassignAlleles()`
bug minor resolved
#5: Newline character horror
bug minor resolved
#3: sortAlleles
bug minor resolved
#2: Outstanding `R CMD check` errors, warnings and relevant notes.
bug minor resolved
#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
#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
#24: Release notes for v0.3.0 missing an important "Backwards Incompatible Refactors"
task major resolved
#32: Review NEWS and vignettes
task major 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
#27: Add to news new arguments for airr compatibility
task major resolved
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