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  3. alakazam

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Issues (26–50 of 52)

Title T P Status Votes Assignee Milestone Created Updated Actions
#4: readChangeoDb should probably convert all columns to character type
enhancement minor resolved
#8: Remove globals for default colors
enhancement minor resolved
#6: Move distToNearest to SHM package
enhancement trivial resolved
#5: collapseDuplicates could use binary distance instead for speed
enhancement minor resolved
#96: Use AIRR-ish names for output fields of calcJunctionAlignment
enhancement trivial resolved
#73: Old tidyverse SE functions are deprecated
enhancement major resolved
#71: Count genes once per clone, or count one gene per clone?
enhancement major resolved
#42: getSeqMatrix vs getDistanceMatrix
enhancement minor invalid
#30: For aminoAcidProperties and related fx: test NAs
enhancement major resolved
#17: Move amino acid analysis from repertoire into main alakazam package
enhancement minor resolved
#26: translateDNA should take a vector
enhancement major resolved
#27: countPattern should take a vector
enhancement major resolved
#24: R CMD Check gravy warning
enhancement minor resolved
#75: New diversity functions
enhancement major resolved
#65: countGenes in Gene.R
enhancement minor resolved
#7: Add cross-sample distToNearest mode
enhancement minor invalid
#1: distToNearest return object might be better as a vector
enhancement trivial resolved
#68: Added newick import/export
enhancement trivial resolved
#93: Have countClones handle NAs in clone_id
enhancement trivial resolved
#86: Execution halted for geneCounts() on c_call
enhancement minor resolved
#88: Clarify file I/O documentation
enhancement minor resolved
#108: Using multiple columns as groups in alphaDiversity
enhancement major open
#99: Calculate clonal frequencies
enhancement major resolved 1
#77: (Commit hash 948e415) CLONE fields in Diversity.R need to be hard-coded and simplified
enhancement minor closed
#76: Document use of collapseDuplicates outside of makeChangeClone
enhancement major new
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