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2006-05-23Further reduced the digits in the pyrithione test, ranke2-32/+32
since it still differed between amd64 and i386. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@82 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-05-23Only print 5 digits in the tests, since I get some differencesranke10-98/+98
in the last digits between amd64 and i386. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@81 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-05-22Make the logit model work again, by setting a sensibleranke7-24/+38
starting value for the scale argument. Now all models get separate starting arguments, with hopefully effective default values. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@80 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-05-19This is now the officially accepted version of the article.ranke1-0/+0
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@79 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-05-08- Corrected the use of the par() function, so no ranke5-21/+15
unnecessary devices are opened any more - Adjusted the .Rout.save files to kriemhilds version (R 2.3.0 from Debian unstable, i386) git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@78 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-05-05- Fix of the drfit() function for the case that the calculationranke3-4/+6
of the confidence interval fails - Updated version of the drfit-Rnews preprint git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@77 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-05-03Changed the way confidence intervals are being calculated. Nowranke8-135/+181
the function confint.nls from the MASS package is being used, after stumbling across the relevant paragraph of the MASS book. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@76 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-28I also removed the get(getOption("device"))()ranke3-4/+10
call from the checkexperiment function, and updated the INDEX. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@75 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-28- Fixed the drplot function, so the graphics parameter ask is adequately setranke29-50/+419
depending on the overlay argument, and set back to the previous value - Added a test for each datase - Added a demo for each dataset - Corrected many small bugs in the documentation and improved formatting of the .Rd files git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@74 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-26Added a note about the user-friendliness of this package.ranke2-3/+4
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@73 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-26Fixed the version number.ranke1-1/+1
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@72 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-26Took out tabs from R help files, and fixed the formatting.ranke6-82/+82
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@71 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-26- drplot: Removed the call to get(getOption("device")), since it causedranke5-33/+28
problems when calling drplot from Sweave code chunks as well as in JGR. - drplot: Removed the output with cat, since it may be annoying to receive a message when a plot was requested - Small documentation adaptations and fixes git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@70 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-26Small documentation fixranke1-1/+1
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@69 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-21Fix the version number again...ranke1-1/+1
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@68 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-21Added the checkplate.R function, which is now just another wayranke3-8/+14
to call checkexperiment.R, and fixed DESCRIPTION and INDEX git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@67 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-21Working version of the checkexperiment function, ranke5-148/+85
including documentation, but R CMD check tells me that "use of NULL environment is deprecated" git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@66 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-21First chunk of work for making checkplate an aliasranke1-0/+101
to checkexperiment which will also work for the ecotox database. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@65 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-21Finally committed the version that was submitted to ranke9-84/+4
CRAN on April 6 to the SVN repository. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@64 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-05Small documentation fixranke1-13/+12
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@63 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-03- The drplot function now accepts custom xlim and ylim valuesranke6-23/+63
- Confidence intervals for the EC50 can now (again) be generated by drfit by giving the argument conf=TRUE - Update of the INDEX git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@62 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-04-01Corrected the split of the drift.R file. ranke6-289/+319
Added example data IM1xIPC81. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@61 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-03-30Split of the drfit.R file to have a separate file for eachranke6-622/+620
function. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@60 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-03-29- Added an error message for drplotranke6-5/+11
- Recalculated the XY data, so the response data is now calculated based on growth rates instead of simple frond numbers - Reduced the number of columns in the IM1xVibrio data git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@59 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-03-16Added the pyrithione and IM1x V. fischeri data with documentationranke11-22/+68
and cleaned the antioul data from some unnecessary components. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@58 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-03-06Added the drfit-package help page, a new sample data fileranke11-49/+133
and a preliminary version of the drfit-Rnews article. R/drfit.R - the possibility to directly write pdf graphs was added - the results dataframe now has numbered lines where it didn't The checkplate and checksubstance functions are now classified internal in their help files. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@57 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-02-27Now the model type (mtype) is set to "active" if the response at the lowestranke3-112/+123
dose level is smaller than 0.5. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@56 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-01-02A fix for a bug that kept drplot from plotting if no control data ranke1-3/+2
are present in the dose-response data frame. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@55 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-01-02- Added a little documentation of the sample data in inst/doc.ranke6-13/+92
- Added the possibility to show standard deviation or confidence interval for the mean of the control values, if present in the dose-response data. Also, control data (with dose=0) are not listed in the results data frame of drfit any more. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@54 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2006-01-02datenranke3-0/+33
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@53 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-12-22The calculation of dose-response curves in drfit was wrong if the number ofranke5-46/+19
dose levels was different from 9. Now, n is calculated as the rounded mean number of response data per dose level. The number of dose levels ndl is additionally reported. The test was removed because it didn't work properly. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@52 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-12-22Small improvement in the help file for the drfit function.ranke2-7/+7
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@51 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-12-21Added a simple test for the drfit function.ranke3-1/+38
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@50 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-12-21As usual, I didn't get the DESCRIPTION file right at first.ranke1-2/+2
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@49 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-12-21Changed the terminology from EC50 to ED50 reflecting that the package is meantranke15-688/+52
for dose-response analysis in general and not only for concentration-response analysis. This is the first revision that has been prepared with the knowledge of the existence of the drc package for dose-response curve analysis. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@48 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-11-25Fixed the check for dose == 0 in drplot() and improvedranke2-7/+13
the model naming in the result table given by drfit() git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@47 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-10-31Small correction in the documentation of the whereClause argument to ranke1-1/+2
the drdata function. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@46 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-10-11Go back to the png device, since we get problems with "(" and ")" in theranke2-5/+5
filenames with ghostscript. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@45 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-10-11Fix version number again...ranke1-2/+2
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@44 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-10-11Change the device for creation of png files to bitmap(), in orderranke1-4/+4
to let people without the X11() device make pngs, too. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@43 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-10-10Fix Version number to sync with SVN.ranke1-2/+2
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@42 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-10-10Percent standard deviation of controls is given by the output of theranke1-3/+4
checkplate function. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@41 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-10-10Change the position of the legend in the checkplate and checksubstance functionsranke1-2/+2
to topleft instead of topright. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@40 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-09-16Neue Version ohne deibianization.ranke8-117/+1
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@39 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-09-16Corrected the version number to be consistent with the repository.ranke1-1/+1
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@38 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-09-16Added the documentation for the drdata function update.ranke2-8/+16
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@37 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-09-16Added support for the UFT ecotox database on eckehaat.ranke1-5/+13
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@36 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-08-08Debianization.ranke7-0/+116
git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@35 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-08-02drplot: Added the pointsize argument for postscript and png graphsranke3-25/+26
drfit: Changed the order of fits in the case of chooseone=TRUE git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@34 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc
2005-07-27Reverted to the old version of the DESCRIPTION file, sinceranke1-1/+1
R CMD check doesn't like the $Rev xx$ around the revision number. git-svn-id: http://kriemhild.uft.uni-bremen.de/svn/drfit@33 d1b72e20-2ee0-0310-a1c4-ad5adbbefcdc

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