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Bioconductor Changlog.
Tue, 13 Oct 2009
flowCore
some changes in the filter definition that were needed for flowClust integration
flowCore
making sure the data is copied when generating a workflow
flowCore
adding a coersion method to manyFilterResult
flowCore
Cleaned up some of my comments.
Perry's updates to the introduction and conclusions.
flowCore
Bumped version no
Updated biexponential transform so that it now calculates
the solution of a generic biexponential function
S(x,a,b,c,d,f) = ae^(bx) -ce^(-dx) +f instead of the logicle function
it was calculating earlier.
Updated Logicle transformation: The implementation of the logicle
transform
was found to be different from that described by Parks et al. A new C
function
was implemented for the logicle transformation reflecting the method
described
in the paper. Additionally, the parameter argument f passed to the
logicle
function was missing a multiplying factor a.
fixing the subsetting of views
We want to be able to add numerics or characters to a workflow
adding support for subsetting operations in workFlows
flowCore
add elements in the papaer, especially in the Results and Discussion section
flowCore
added vectorized version of figure 1
flowCore
update to close connection on exit
added a isFCSfile function
flowCore
making sure all parameters in a flowSet are the same
flowCore
added flowQ figure to paper
some updates to the paper
flowCore
Fixed man page link issue.
flowCore
some more coercion methods
flowCore
We are able to read files without PnE keyword now. The default of '0,0' is used and a warning is issued
flowCore
added a more programatic interface to create transformMaps
flowCore
changed eval methods for polytope and ellipsoid gates
flowCore
adding functions to write flowFrames and flowSets to FCS files
flowCore
Fixed issue with the wrong min range when reading in a fcs file , bumped version no
making sure the range parameter is ignored for clipping after the data has been transformed
flowCore
more on the outline
more cleaning up of name space
flowCore
fixed hyperlog transforms, compensation and added EH transforms
dealing with conflicts between Florians and Nishants versions
started to clean up the classes
flowCore
fixed bug in coercion to flowFrame for empty frames
added import for plot generic
flowCore
more updates to the documenation an a number of little buf fixes
flowCore
Bumped pkg versions for BioC 2.5 devel line.
Bumped pkg versions for BioC 2.4 release.
flowCore
fixing some issues with manyFilterResults
flowCore
another for subsetting of empty flowFrames
fixing bug when subsetting empty flowFrames
flowCore
bumping version
fixing some minor issues with keywords
flowCore
changed the link fin filter-methods from itself to Subset
flowCore
fixed bug in splitting of flowSets by factors
flowCore
fixed a number of bugs in data import and basic plotting functions
flowCore
changes suggested by Ryan and Josef
flowCore
some changes of the paper and addition of work flows
flowCore
we are a bit more relaxed about this 10 bit bug in BC FCS files now. When we see the CPX keyword we warn that we fixed the file, if it's not there we still proceed (with 16 bit) but give a more urgent warning
flowCore
more verbose error messages when getting out of index on a filter
flowCore
more updates to the documenation an a number of little buf fixes
many little fixes of the documentation
flowCore
bumping version
'readFlowSet' was overly verbose
allowing to use transformList objects in transform calls
flowCore
moved all plotting stuff to flowViz, flowCore now issues a message to attach flowViz for all plotting
flowCore
updated docs for transformations
flowCore
fixed some minor bugs in the ncdf stuff and bumped version number
introducing netcdf storage for flowFrames
undo mechanism for workFlows and error handling
flowCore
fixed warnings for missing documenation during R CMD check
flowCore
initialisation method for flowFrame
flowCore
update to documentation and addition of methods