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Issues (1–25 of 83)

Title T P Status Votes Assignee Milestone Created Updated Actions
#103: groupGenes needs updated naming and to figure out the locus list.
bug minor resolved
#105: ylim argument in plotAbundanceCurve has no effect
bug minor resolved
#104: readChangeoDb convert the sequence_id column into double, probably when ID start by a digit
bug major resolved
#101: Error running estimateAbundance
bug major resolved
#100: Clonal diversity
bug major resolved
#99: Calculate clonal frequencies
enhancement major resolved 1
#96: Use AIRR-ish names for output fields of calcJunctionAlignment
enhancement trivial resolved
#94: buildPhylipLineage fails on Windows
bug major resolved 1
#95: calcJunctionAlignment needs an example
task minor resolved
#91: basic, acidic and aromatic output fields from aminoAcidProperties() are always zero
bug minor resolved
#93: Have countClones handle NAs in clone_id
enhancement trivial resolved
#86: Execution halted for geneCounts() on c_call
enhancement minor resolved
#90: NA row for geneCounts() on d_call
bug minor resolved
#89: getSegment doesn't work for C-regions
bug minor resolved
#88: Clarify file I/O documentation
enhancement minor resolved
#85: IgPhyML lineage tree analysis does not work with test data
bug major resolved
#84: Help understanding diversity tests at a fixed diversity order
proposal major resolved
#83: groupGenes doesn't support TCR data
bug major resolved
#82: Review NEWS and vignettes
task major resolved
#81: Lower case in readIgphyml and combineIgphyml
task major resolved
#78: collapseDuplicates edge case (every sequence in a clone_id is ambiguous except for one sequence)
bug minor resolved
#80: alakazam::getnproc can sometimes return NA because of parallel::detectCores() which can be problematic for functions that use this command e.g. groupBaseline
bug minor resolved
#79: Issue is plotting output from estimateAbundance function using ExampleDb dataset
bug minor resolved
#74: Remove NSE from gather call in combineIgphyml
bug minor resolved
#68: Added newick import/export
enhancement trivial resolved
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