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Issues (1–25 of 55)

Title T P Status Votes Assignee Milestone Created Updated Actions
#105: ylim argument in plotAbundanceCurve has no effect
bug minor resolved
#103: groupGenes needs updated naming and to figure out the locus list.
bug minor resolved
#95: calcJunctionAlignment needs an example
task minor resolved
#92: Add readAIRR() and update readChangeoDb(). They should accept a vector of files and check uniqueness
proposal minor new 1
#91: basic, acidic and aromatic output fields from aminoAcidProperties() are always zero
bug 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
#87: writeChangeoDb() puts NA for null/blank values
bug minor invalid
#86: Execution halted for geneCounts() on c_call
enhancement 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
#78: collapseDuplicates edge case (every sequence in a clone_id is ambiguous except for one sequence)
bug minor resolved
#77: (Commit hash 948e415) CLONE fields in Diversity.R need to be hard-coded and simplified
enhancement minor closed
#74: Remove NSE from gather call in combineIgphyml
bug minor resolved
#72: Replace gridPlot with cowplot:plot_grid
enhancement minor new
#70: error and warning messages from plotDiversityCurve()
bug minor resolved
#69: Allow ungrouped data in rarefyDiversity and estimateAbundance
enhancement minor resolved
#67: changing tmp directory buildPhylipLineage
bug minor resolved
#65: countGenes in Gene.R
enhancement minor resolved
#64: Make length mismatch warning more meaningful in makeChangeoClone
enhancement minor resolved
#63: Clarification to using indirect=TRUE in testEdges
bug minor resolved
#61: See if there is way to add dispatching to plotAbundance
enhancement minor resolved
#60: Allow non-uniform sampling in rarefyDiversity
enhancement minor resolved
#59: Add an option to aminoAcidProperties to use region definitions
proposal minor wontfix
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