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GGexplorer
sample changes

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GGexplorer
nothing

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GGexplorer
The site and updated file are located in GGexSite
All is edited except for proper visualization
I will go back and add the lates versions of GGdata and GGtools
The file vjc.R was updated to view all SNP pictures, the SNP table, and p-value together
Also run the GGexplorer site with vjc1.R with instead of ggtools3.R
The site and updated file are located in GGexSite
All is edited except for proper visualization
I will go back and add the lates versions of GGdata and GGtools
The file vjc.R was updated to view all SNP pictures, the SNP table, and p-value together
Also run the GGexplorer site with vjc1.R with instead of ggtools3.R

[/GGexplorer] permanent link

GGexplorer
crom 2 images

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GGexplorer
Here is the script that I used to run the testExplorer funtion!
formData$build1 = "hmyriB36"
formData$hmFou = formData$build1
formData$gene = "WRN"
formData$nsnps = 10
formData$chromosome = 8
formData$pData = "male"
source("ggtools4f.R")
sink("/tmp/demo.html")
testExplorer(formData)
sink()
if (formData$build1 == "hmceuB36") {
library(GGdata)
if (!exists("hmceuB36"))
data(hmceuB36)
if (!exists("hmceuB36"))
pd = pData(hmceuB36)
}
else if (formData$build1 == "hmyriB36") {
library(hmyriB36)
if (!exists("hmyriB36"))
data(hmyriB36)
if (!exists("hmyriB36"))
pd = pData(hmyriB36)
}
else return("

bad population selection

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

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GGexplorer
new project

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GGexplorer
got rid of comment
i added a coment

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GGexplorer
Did some cleaning up of the script, indention, etc.

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GGexplorer
Hey Vince this code works within the function but the version with apache still has errors. You may have to come take a look. I added the haplotype
information.

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GGexplorer
Hey Vince this code works within the function but the version with apache still has errors. You may have to come take a look. I added the haplotype
information.

[/GGexplorer] permanent link

GGexplorer
crom 2 images
first collection of -logp plots

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GGexplorer
added some topSnp info in inst

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GGexplorer
some new material

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GGexplorer
ok

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GGexplorer
some new material

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GGexplorer
clean up images to single archives
tar instead

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GGexplorer
Removed unneeded geneplotter dependency.

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GGexplorer
mode changes
comment: changed version

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GGexplorer
Removed unneeded geneplotter dependency.

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GGexplorer
Changed biocViews entry of Statistics to Bioinformatics.

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GGexplorer
This is the site with the updated visualizations

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GGexplorer
ok
ok
has text output
ok

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