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Issues

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Issues (1–23 of 23)

Title T P Status Votes Assignee Milestone Created Updated Actions
#138: calcObservedMutations isn't handling germline gaps correctly
bug major resolved
#122: fix targeting models empty tests
bug major resolved
#130: Review NEWS and vignettes
task major resolved
#129: Add number of mutations used for building targeting models in output
enhancement minor resolved
#119: Add to shmulateSeq option to specify mutations in percent
proposal minor resolved
#124: Shazam brown bag release
bug critical resolved
#117: fix test
bug blocker resolved
#108: Edit help text to make clear when some codons are excluded by observedMutations
task minor resolved
#64: Mutation profiling and shmulate vignette
enhancement minor resolved
#104: Write tests & run test on BASELINe for single-sequence input
task major resolved
#92: add tests for calcClonalConsensus and collapseClones
task critical resolved
#91: add option to break ties using additional columns (only if it's not too much work)
enhancement trivial resolved
#90: bring back stochastic option for calcClonalConsensus
enhancement minor resolved
#89: create most/least mutated seq option for calcClonalConsensus
enhancement minor resolved
#93: adapt calcObservedMutations for seq containing ambiguous character
task major resolved
#56: Add unique mutations per clone measures to targeting model generation
enhancement major wontfix
#27: Add options to clonal consensus generation to create non-randomized consensus sequences
enhancement major resolved
#80: non-NA sigma mean returned by BASELINe local test for codons with no sequence data during codon-by-codon analysis
bug major resolved
#72: R CMD check issues
bug trivial resolved
#77: Update calcTargetingDistance
task minor resolved
#76: add baseline correction to reference on readthedocs
enhancement minor resolved
#74: Make a function to make degenerate 5-mer model
enhancement minor resolved
#70: Add human and mouse light chain models
enhancement minor resolved