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Final Logistic regression and reference changes
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8 changes: 5 additions & 3 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI10.html
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Expand Up @@ -219,15 +219,17 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test can only be used to analyse 2 x 2 contingency tables.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<h2> Analysis dataset</h2>

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8 changes: 5 additions & 3 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI11.html
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Expand Up @@ -217,15 +217,17 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test can only be used to analyse 2 x 2 contingency tables.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<h2> Analysis dataset</h2>

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8 changes: 5 additions & 3 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI12.html
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Expand Up @@ -219,15 +219,17 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test can only be used to analyse 2 x 2 contingency tables.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<h2> Analysis dataset</h2>

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8 changes: 5 additions & 3 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI13.html
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Expand Up @@ -219,15 +219,17 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test can only be used to analyse 2 x 2 contingency tables.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<h2> Analysis dataset</h2>

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8 changes: 5 additions & 3 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI14.html
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Expand Up @@ -203,15 +203,17 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test can only be used to analyse 2 x 2 contingency tables.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<h2> Analysis dataset</h2>

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8 changes: 5 additions & 3 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI15.html
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Expand Up @@ -205,15 +205,17 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test can only be used to analyse 2 x 2 contingency tables.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI16.html
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Expand Up @@ -195,19 +195,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI17.html
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Original file line number Diff line number Diff line change
Expand Up @@ -197,19 +197,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI18.html
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Original file line number Diff line number Diff line change
Expand Up @@ -197,19 +197,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI19.html
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Expand Up @@ -193,19 +193,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI20.html
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Original file line number Diff line number Diff line change
Expand Up @@ -195,19 +195,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI21.html
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Original file line number Diff line number Diff line change
Expand Up @@ -195,19 +195,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI22.html
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Original file line number Diff line number Diff line change
Expand Up @@ -195,19 +195,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI23.html
View file
Original file line number Diff line number Diff line change
Expand Up @@ -197,19 +197,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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10 changes: 6 additions & 4 deletions SilveR.IntegrationTests/ExpectedResults/ChiSquaredAndFishersExactTest/CHI24.html
View file
Original file line number Diff line number Diff line change
Expand Up @@ -197,19 +197,21 @@ <h2> Barnard's exact test</h2>

<p class='character'>Barnard's test is a more powerful test than Fisher's exact test in certain situations as it is an unconditional test, see Lydersen et al. (2009). This test only assumes the row totals are fixed and not the column totals, unlike Fisher's exact test.</p>

<h2> Statistical references</h2>
<h2> References</h2>

<p class='character'>When referring to InVivoStat, please cite 'InVivoStat, version 4.1'.</p>

<p class='character'>Bate, S.T. and Clark, R.A. (2014). The Design and Statistical Analysis of Animal Experiments. Cambridge University Press.</p>

<p class='character'>Lydersen, S., Fagerland, M.W. and Laake, P. (2009). Recommended tests for association in 2 x 2 tables. Statistics in Medicine, 28, 1159-1175.</p>

<h2> R references</h2>
<h4> R references</h4>

<p class='character'>R Development Core Team (2013). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.R-project.org.</p>

<p class='character'>Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>
<p class='character'> Lecoutre, Eric (2003). The R2HTML Package. R News, Vol 3. N. 3, Vienna, Austria.</p>

<p class='character'>Peter Calhoun (2013). Exact: Unconditional Exact Test. R package version 1.4. http://CRAN.R-project.org/package=Exact.</p>
<p class='character'> Peter Calhoun (2019). Exact: Unconditional Exact Test. R package version 2.0. https://CRAN.R-project.org/package=Exact</p>

<h2> Analysis dataset</h2>

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