[BioC] flowStats's warping function problem

[Chao-Jen Wong]

Sorry, forget to attach my sessionInfo. Please notice that I use
fda_2.1.3 instead of fda2.1.2

> sessionInfo()
R version 2.10.0 Under development (unstable) (2009-09-11 r49665)
x86_64-unknown-linux-gnu

locale:
[1] C

attached base packages:
[1] splines   stats     graphics  grDevices utils     datasets  methods
[8] base

other attached packages:
 [1] flowViz_1.9.9    lattice_0.17-25  flowStats_1.3.6  fda_2.1.3
 [5] zoo_1.5-6        flowCore_1.11.19 rrcov_0.5-01     pcaPP_1.6
 [9] mvtnorm_0.9-7    robustbase_0.4-5 Biobase_2.5.8

loaded via a namespace (and not attached):
 [1] KernSmooth_2.23-3  MASS_7.3-2         RColorBrewer_1.0-2 feature_1.2.3
 [5] graph_1.23.2       grid_2.10.0        ks_1.6.5          
latticeExtra_0.6-1
 [9] stats4_2.10.0      tools_2.10.0

Chao-Jen Wong wrote:
> Hi, Josef,
>
> As for the second issue that you mentioned (below), since warpSet itself
> returns a flowSet object, it makes sense warpSet(original,
> "FL1-H")$flowset would return NULL (see the value section in warpSet's
> man page). The correct way is to get the resulting flowSet object is:
> obj <- warpSet(original, "FL1-H")
> str(obj)
>
> To view the result, do
> densityplot(~`FL1-H`, original)
>
> Sorry for the delay of my response.
>
> Cheers,
> Chao-Jen
>   
>>>> Issue 2, no error but returns NULL:
>>>>  > warpSet(original, "FL1-H")$flowset
>>>> Estimating landmarks for channel FL1-H ...
>>>> Registering curves for parameter FL1-H ...
>>>> NULL
>>>>  >
>>>>         
>
>   


-- 
Chao-Jen Wong
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Avenue N., M2-B876
PO Box 19024
Seattle, WA 98109
206.667.4485
cwon2 at fhcrc.org