Projects/laydi
Projects
/
laydi
Archived
7
0
Fork 0
Code Issues Pull Requests Activity

Small cleanup.

This commit is contained in:
Truls Alexander Tangstad 2006-05-09 14:16:22 +00:00
parent 443b18cea6
commit 9ab1ebe687
1 changed files with 1 additions and 3 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

4
workflows/affy_workflow.py
View File

@ -161,9 +161,7 @@ Example: Y-N, M-F""" % ", ".join(data.get_categories()))
rpy.r.assign("expr", affy.asarray())
silent_eval("fit <- lmFit(expr, design)")
# FIXME: might be a case for code injection...
string = "contrast.matrix <- makeContrasts(%s, levels=design)" % response
silent_eval(string)
silent_eval("contrast.matrix <- makeContrasts(%s, levels=design)" % response)
silent_eval("fit2 <- contrasts.fit(fit, contrast.matrix)")
silent_eval("fit2 <- eBayes(fit2)")
coeff = rpy.r("fit2$coefficients")