sort(unique(ASSAY.INFO[,"source_group"]))
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source_Zdist_2(F)
dev.off()
dev.off()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all()
ASSAY.INFO[,is.na(ASSAY.INFO[,"source_group"]),"assay"]
ASSAY.INFO[is.na(ASSAY.INFO[,"source_group"]),"assay"]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
scale.top.by.assay()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
save.state()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.diagnostics(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
chemical.hitdist(F,"ESR1")
chemical.hitdist(F)
chemical.hitdist(T)
names(ASSAY.INFO)
sort(unique(ASSAY.INFO[,"source_group"]))
dim(MAT.AC50)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
prep.matrices()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
prep.matrices()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
prep.matrices()
names(ASSAY.INFO)
assay.list.2 <- ASSAY.INFO[is.element(ASSAY.INFO[,"source_group"],SOURCE.GROUPS)]
assay.list.2 <- ASSAY.INFO[is.element(ASSAY.INFO[,"source_group"],SOURCE.GROUPS),"assay"]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
prep.matrices()
run.all()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
print.summary.stats()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
print.summary.stats()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
print.summary.stats()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
chemical.hitdist(to.file=T,target.gene="ESR1")
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
chemical.hitdist(to.file=F,target.gene="ESR1")
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
chemical.hitdist(to.file=F,target.gene="ESR1")
chemical.hitdist(to.file=T,target.gene="ESR1")
source.Zdist.2(to.file=F,zmode="norm")
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source.Zdist.2(to.file=F)
source.Zdist.2(to.file=T)
target.analysis(F)
target.analysis(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
target.analysis(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
target.analysis(T)
bioprocess.quadrant_trellis_Z(do.prep=T,to.file=F)
bioprocess.quadrant.trellis.Z(T,T)
bioclass.hm(F)
bioclass.hm(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
bioclass.hm(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
bioclass.hm(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
bioclass.hm(F)
bioclass.hm(T)
bioclass.hm(T)
bruns.watson(F)
bruns.watson(F)
bruns.watson(T)
cytotox.boxplot(F)
cytotox.count.boxlot(F)
cytotox.count.boxplot(F)
cytotox.boxplot(T)
cellfree.vs.cellbased(F)
Q
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
cellfree.vs.cellbased(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(F)
cellfree.vs.cellbased(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cellfree.vs.cellbased(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.diagnostics()
length(CODE.LIST)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
hitmat[1:10,]
CYTOTOX.ASSAYS
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
chemical.hitdist(T,"ESR1")
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
merge.assay.defs()
cytotox.boxplot(F)
hitmat[1:10,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
slope
intercept
result
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
bioclass.hm(F)
bioclass.hm(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
merge.assay.defs()
bioclass.hm(T)
merge.assay.defs()
bioclass.hm(T)
cytotox.boxplot(F)
dim(CYTOTOX)
names(CYTOTOX)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
temp[1:3,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
htemp[1:3,]
CYTOTOX[1:3,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
cytotox[1:10,]
CYTOTOX[1:10,]
dim(htemp)
rs[1:10]
cytotox[1:10,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
temp
median(temp)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
cytotox[1:10,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
mad.global
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
cytotox[1:10,]
CYTOTOX["C100016",]
hist(cytotox[,"cytotox_mad"])
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
merge.assay.defs()
z.calc()
colSums(htemp)
merge.assay.defs()
z.calc()
colSums(htemp)
merge.assay.defs()
z.calc()
colSums(htemp)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
zmat[1,]
zmat[,1]
hits[,1]
hits
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
names(zmat)
hits
hits
zmat[,i]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
zmat[1:3,]
z.calc()
zmat[,"NVS_TR_hSERT"]
MAT.hitcall[,"NVS_TR_hSERT"]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
MAT.hitcall[,"NVS_TR_hSERT"]
zmat[,"NVS_TR_hSERT"]
dim(zmat)
ls()
dim(MAT.Z)
zmat[1:5,1:5]
zmat[1:10,1:5]
MAT.Z[1:10,1:5]
MAT.hitcall[1:10,1:5]
MAT.hitcall[1:10,10:15]
MAT.hitcall[1:10,10:13]
MAT.hitcall[10:20,10:13]
MAT.Z[10:20,10:13]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
prep.matrices()
z.calc()
MAT.Z[10:20,10:13]
zmat[10:20,10:13]
MAT.logAC50[10:20,10:13]
CYTOTOX["C101202",]
MAT.logAC50["C80057","ATG_CIS_ESR"]
MAT.logAC50["C80057","ATG_ESR_CIS"]
MAT.logAC50["C80057","ATG_ESR_CIS_up"]
MAT.logAC50["C80057","ATG_CIS_ESR_up"]
MAT.logAC50["C80057","ATG_ERE_CIS_up"]
MAT.Z["C80057","ATG_ERE_CIS_up"]
zmat["C80057","ATG_ERE_CIS_up"]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
MAT.logAC50[10:20,10:13]
zmat[10:20,10:13]
MAT.Z[10:20,10:13]
zmat["C80057","ATG_ERE_CIS_up"]
MAT.Z["C80057","ATG_ERE_CIS_up"]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all()
run.diagnostics()
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all(do.diagnostics=T)
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
merg.assay.defs()
merge.assay.defs()
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
merge.assay.defs()
prep.assay.defs()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source.Zdist(to.file=T,zmode="original")
shift.zscore()
scale.top.by.assay()
chem.dictionary()
print.summary.stats()
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all(do.diagnostics=T)
cytotox.boxplot(F)
summary(res)
summary(result)
hitmat[1:3,]
hitmat[1:3,]
dim(hitmat)
length(groups)
groups[1:10]
max(groups)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
Q
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
groups
values
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
cytotox.boxplot(F)
cytotox.boxplot(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
bioclass.hm(T)
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all(do.diagnostics=T)
names(CHEMS)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
export.files
export.files()
chemical.hitdist(to.file=T,target.gene=NA)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
chemical.hit.dist.summary(do.prep=T,to.file=F)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
chemical.hit.dist.summary(do.prep=T,to.file=F)
chemical.hit.dist.summary(do.prep=T,to.file=T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.analysis()
length(code.list)
dim(temp)
temp[1:10,]
tt <- MAT.tested[,assay.list]
tt[1:10,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.analysis()
length(code.list)
ls()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
ls()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
rm(list=ls())
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all()
??version
R.Version()
run.diagnostics()
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
ls()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
target.analysis(F)
NCHEM
names(CHEMS)
names(ASSAY.INFO)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.dmat()
fim(dmat)
dim(dmat)
sum(dmat[,"hitcall"])
prep.matrices()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.dmat()
export.files()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
resmat
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
resmat
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
x <- MAT.hitmat[1:10,1:10]
x <- MAT.hitcall[1:10,1:10]
x
y <- as.vector(x)
y
y <- as.numeric(x)
class(x)
y <- as.numeric(as.matrix(x)
)
y
length(y)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
target.analysis.2()
target.analysis.2(T)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/diagnostics_v04.R')
assay.Zdist(F)
assay.Zdist(T)
ls()
CYTOTOX[1:3,]
z.calc()
CYTOTOX[1:3,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
z.calc()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
genescore.driver()
source("genescore_v01.R")
genescore.driver()
genescore_driver()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/genescore_v01.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/genescore_v01.R')
genescore.driver()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/genescore_v01.R')
prep.genescore.matrix()
load.genescore.matrix()
genescore.hm(to.file=T,cex.col=0.1,cex.row=0.1,cutoff=4,minhit=2)
ls()
names(CHEMS)
CHEMS["C7696120",]
GMATRIX["C7696120",]
GMATRIX[1:2,]
dim(GENEDATA)
dim(GMATRIX)
GENEDATA[1:2,]
GENEDATA["C7696120",]
MAT.AC50["C7696120",]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/genescore_v01.R')
calc.genescore()
STEMP["C7696120",]
CHEMS["C7696120",]
save.state()
sort(names(MAT.AC50))
ls()
sort(names(MAT.AC50))
names(MAT.AC50)
dim(MAT.AC50)
class(MAT.AC50)
sort(colnames(MAT.AC50))
names(ASSAY.INFO)
unique(ASSAY.INFO[,"source_group"])
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
run.all()
sort(colnames(MAT.AC50))
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
ASSAY.LIST
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
dmat[1:3,]
BB.dmat()
dmat
dim(dmat)
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
dim(dmat)
dmat
source('~/.active-rstudio-document')
source('~/.active-rstudio-document')
source('~/.active-rstudio-document')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/toxcast_driver_v02.R')
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
dmat[1:3,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.dmat()
dmat[1:3,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.pyrethroids()
dmat[1:3,]
source('Z:/ACToR/ToxCast/toxminer_v21/analysis/ToxCast_PIII_01/ToxCastModel/R/BB.R')
BB.pyrethroids()
