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DNAcopy
Bumping version numbers for BioC 2.4 devel.
Bumping version numbers for BioC 2.3 release.

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DNAcopy
Fixed bug in the new wCBS statistic code.
Faster algorithm to compute the CBS statistic is used.

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DNAcopy
Bug fixes to wtermp call and code.
Fix a small bug in wtermp.

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DNAcopy
Added segments.summary command to give sd, median and mad of segments in
addition to the mean. Changed Venkat's affiliation in the vignette.

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DNAcopy
Added segments.summary command to give sd, median and mad of segments in
addition to the mean. Changed Venkat's affiliation in the vignette.

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DNAcopy
Bumped pkg versions for BioC 2.5 devel line.
Bumped pkg versions for BioC 2.4 release.

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DNAcopy
QUALITY: Added a redundancy test under tests/.
CLEAN UP: Standardized the License field in DESCRIPTION.

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DNAcopy
high t-statistic threshold applied only if segment lenth is at least 10

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DNAcopy
bumped version number to correspond to the change made
updated the call to get(getOption("device")) to use dev.new

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DNAcopy
Changed biocViews DNACopyNumber to CopyNumberVariants and SNPsAndGeneticVariability to SNP, GeneticVariability.

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DNAcopy
Output from segment now has weighted segment means for weighted CBS

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DNAcopy
fixed seglen bug in segments.p (Error: object "seglen" not found)
v11.3.1: Added pseudo confidence intervals and removed windowing

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DNAcopy
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

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DNAcopy
This version has changes in code to make it faster.
Rudimentary code added to identify translocations in exon data.

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DNAcopy
Added a new argument to the segment function to allow user selectable
minimum segment width. Value should be between 2 and 5.

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DNAcopy
Code added to do weighted CBS to account for probe variability.

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DNAcopy
Fixed fortran variable declarations to avoid the warning messages.

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DNAcopy
House Cleaning: Removing INDEX files from svn. These files are created in the build process and shouldn't be version controlled.

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DNAcopy
Removed unused variables if Fortran code to fix warnings

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DNAcopy
fixed Rd 2 parser warnings

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DNAcopy
Fixed segments.p such that p > 1 will be 1.

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