From 932e8394a21b9d33eb0a60716ec22ed578f2668c Mon Sep 17 00:00:00 2001 From: GitHub Actions Date: Thu, 25 Apr 2024 22:43:05 +0000 Subject: [PATCH] cli-14512-589 --- 404.html | 2 +- NOTES.html | 2 +- articles/QFeatures_nutshell.html | 4 ++-- articles/advanced.html | 4 ++-- articles/index.html | 2 +- articles/read_scp.html | 4 ++-- articles/reporting_missing_values.html | 2 +- articles/scp.html | 4 ++-- articles/scp_data_modelling.html | 4 ++-- authors.html | 2 +- index.html | 2 +- news/index.html | 18 +++++++++++------- pkgdown.yml | 2 +- reference/ScpModel-ComponentAnalysis.html | 2 +- reference/ScpModel-DataCorrection.html | 2 +- reference/ScpModel-DifferentialAnalysis.html | 2 +- reference/ScpModel-VarianceAnalysis.html | 2 +- reference/ScpModel-Workflow.html | 2 +- reference/ScpModel-class.html | 2 +- reference/ScpModelFit-class.html | 2 +- reference/addReducedDims.html | 2 +- reference/aggregateFeaturesOverAssays.html | 2 +- reference/computeSCR.html | 2 +- reference/cumulativeSensitivityCurve.html | 2 +- reference/divideByReference.html | 2 +- reference/index.html | 2 +- reference/jaccardIndex.html | 2 +- reference/leduc_minimal.html | 2 +- reference/medianCVperCell.html | 2 +- reference/mqScpData.html | 2 +- reference/normalizeSCP.html | 2 +- reference/pep2qvalue.html | 2 +- reference/readSCP.html | 2 +- reference/reportMissingValues.html | 4 ++-- reference/sampleAnnotation.html | 2 +- reference/scp1.html | 2 +- reference/scpAnnotateResults.html | 2 +- 37 files changed, 53 insertions(+), 49 deletions(-) diff --git a/404.html b/404.html index 54f1edc..01d452a 100644 --- a/404.html +++ b/404.html @@ -32,7 +32,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/NOTES.html b/NOTES.html index ec1056d..cb8015d 100644 --- a/NOTES.html +++ b/NOTES.html @@ -17,7 +17,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/articles/QFeatures_nutshell.html b/articles/QFeatures_nutshell.html index ebcc6c7..d9c641c 100644 --- a/articles/QFeatures_nutshell.html +++ b/articles/QFeatures_nutshell.html @@ -33,7 +33,7 @@ scp - 1.13.5 + 1.13.6 @@ -718,7 +718,7 @@

Session information scp - 1.13.5 + 1.13.6 @@ -478,7 +478,7 @@

Session information scp - 1.13.5 + 1.13.6 diff --git a/articles/read_scp.html b/articles/read_scp.html index fd85ce8..d42816b 100644 --- a/articles/read_scp.html +++ b/articles/read_scp.html @@ -33,7 +33,7 @@ scp - 1.13.5 + 1.13.6 @@ -641,7 +641,7 @@

Session information scp - 1.13.5 + 1.13.6 diff --git a/articles/scp.html b/articles/scp.html index 61c160a..1a03c67 100644 --- a/articles/scp.html +++ b/articles/scp.html @@ -33,7 +33,7 @@ scp - 1.13.5 + 1.13.6 @@ -1146,7 +1146,7 @@

Session information scp - 1.13.5 + 1.13.6 @@ -915,7 +915,7 @@

Session information scp - 1.13.5 + 1.13.6 diff --git a/index.html b/index.html index 5ffbe56..563e192 100644 --- a/index.html +++ b/index.html @@ -33,7 +33,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/news/index.html b/news/index.html index 3b6fd39..c318bd1 100644 --- a/news/index.html +++ b/news/index.html @@ -17,7 +17,7 @@ scp - 1.13.5 + 1.13.6 @@ -75,31 +75,35 @@

Changelog

scp 1.13

-

scp 1.13.5

+

scp 1.13.6

+

(nothing yet)

+
+
+

scp 1.13.5

  • fix: fixed small error in degrees of freedom
  • fix: break workflow upon infinite values
-

scp 1.13.4

+

scp 1.13.4

  • fix: first drop variable before centering numerical variables (see #54)
-

scp 1.13.3

+

scp 1.13.3

  • Refactor readSCP() and readSCPFromDIANN() to use new QFeatures implementations.
-

scp 1.13.2

+

scp 1.13.2

  • New scplainer workflow and citation
  • Add addReducedDims() (see #52)
  • fix: logFC and associated SE are now correctly computed
-

scp 1.13.1

+

scp 1.13.1

  • docs: fixed vignette about reporting missing values
  • docs: add a QFeatures figure to the nutshell vignette
-

scp 1.13.0

+

scp 1.13.0

  • New Bioconductor 3.18 (devel) release
diff --git a/pkgdown.yml b/pkgdown.yml index 57eef60..93cde1c 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -8,5 +8,5 @@ articles: reporting_missing_values: reporting_missing_values.html scp_data_modelling: scp_data_modelling.html scp: scp.html -last_built: 2024-04-25T22:33Z +last_built: 2024-04-25T22:38Z diff --git a/reference/ScpModel-ComponentAnalysis.html b/reference/ScpModel-ComponentAnalysis.html index 6b5003f..6101b57 100644 --- a/reference/ScpModel-ComponentAnalysis.html +++ b/reference/ScpModel-ComponentAnalysis.html @@ -22,7 +22,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/ScpModel-DataCorrection.html b/reference/ScpModel-DataCorrection.html index 961341e..a93a543 100644 --- a/reference/ScpModel-DataCorrection.html +++ b/reference/ScpModel-DataCorrection.html @@ -39,7 +39,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/ScpModel-DifferentialAnalysis.html b/reference/ScpModel-DifferentialAnalysis.html index 90042a5..463f782 100644 --- a/reference/ScpModel-DifferentialAnalysis.html +++ b/reference/ScpModel-DifferentialAnalysis.html @@ -19,7 +19,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/ScpModel-VarianceAnalysis.html b/reference/ScpModel-VarianceAnalysis.html index 5cf263a..3330bf5 100644 --- a/reference/ScpModel-VarianceAnalysis.html +++ b/reference/ScpModel-VarianceAnalysis.html @@ -18,7 +18,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/ScpModel-Workflow.html b/reference/ScpModel-Workflow.html index 50467e8..b5d0f21 100644 --- a/reference/ScpModel-Workflow.html +++ b/reference/ScpModel-Workflow.html @@ -18,7 +18,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/ScpModel-class.html b/reference/ScpModel-class.html index abbc850..5ab0cd4 100644 --- a/reference/ScpModel-class.html +++ b/reference/ScpModel-class.html @@ -40,7 +40,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/ScpModelFit-class.html b/reference/ScpModelFit-class.html index ddddb19..1cea641 100644 --- a/reference/ScpModelFit-class.html +++ b/reference/ScpModelFit-class.html @@ -39,7 +39,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/addReducedDims.html b/reference/addReducedDims.html index 5577e1a..c5b77a0 100644 --- a/reference/addReducedDims.html +++ b/reference/addReducedDims.html @@ -20,7 +20,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/aggregateFeaturesOverAssays.html b/reference/aggregateFeaturesOverAssays.html index a35f547..89cdd37 100644 --- a/reference/aggregateFeaturesOverAssays.html +++ b/reference/aggregateFeaturesOverAssays.html @@ -20,7 +20,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/computeSCR.html b/reference/computeSCR.html index 7a7c866..ef8f738 100644 --- a/reference/computeSCR.html +++ b/reference/computeSCR.html @@ -19,7 +19,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/cumulativeSensitivityCurve.html b/reference/cumulativeSensitivityCurve.html index 0e0127b..3d31c9d 100644 --- a/reference/cumulativeSensitivityCurve.html +++ b/reference/cumulativeSensitivityCurve.html @@ -21,7 +21,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/divideByReference.html b/reference/divideByReference.html index 1af769c..ed414d3 100644 --- a/reference/divideByReference.html +++ b/reference/divideByReference.html @@ -19,7 +19,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/index.html b/reference/index.html index 13135c6..d42721f 100644 --- a/reference/index.html +++ b/reference/index.html @@ -17,7 +17,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/jaccardIndex.html b/reference/jaccardIndex.html index 6b74e44..7d48c91 100644 --- a/reference/jaccardIndex.html +++ b/reference/jaccardIndex.html @@ -17,7 +17,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/leduc_minimal.html b/reference/leduc_minimal.html index 67b1c2a..b34aa70 100644 --- a/reference/leduc_minimal.html +++ b/reference/leduc_minimal.html @@ -27,7 +27,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/medianCVperCell.html b/reference/medianCVperCell.html index 9139428..0e66e36 100644 --- a/reference/medianCVperCell.html +++ b/reference/medianCVperCell.html @@ -26,7 +26,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/mqScpData.html b/reference/mqScpData.html index d40d221..c2ed2c1 100644 --- a/reference/mqScpData.html +++ b/reference/mqScpData.html @@ -160,7 +160,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/normalizeSCP.html b/reference/normalizeSCP.html index dce8aa9..33628c1 100644 --- a/reference/normalizeSCP.html +++ b/reference/normalizeSCP.html @@ -19,7 +19,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/pep2qvalue.html b/reference/pep2qvalue.html index 499a533..7bb916e 100644 --- a/reference/pep2qvalue.html +++ b/reference/pep2qvalue.html @@ -20,7 +20,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/readSCP.html b/reference/readSCP.html index fdd55a7..2603612 100644 --- a/reference/readSCP.html +++ b/reference/readSCP.html @@ -19,7 +19,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/reportMissingValues.html b/reference/reportMissingValues.html index 682977a..f9a1c09 100644 --- a/reference/reportMissingValues.html +++ b/reference/reportMissingValues.html @@ -18,7 +18,7 @@ scp - 1.13.5 + 1.13.6 @@ -305,7 +305,7 @@

Examples

#> } #> invisible(names) #> } -#> <bytecode: 0x5585ab0ec1d8> +#> <bytecode: 0x5622ac5c0ff8> #> <environment: namespace:utils> diff --git a/reference/sampleAnnotation.html b/reference/sampleAnnotation.html index e7ebd7e..e8068eb 100644 --- a/reference/sampleAnnotation.html +++ b/reference/sampleAnnotation.html @@ -25,7 +25,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/scp1.html b/reference/scp1.html index b512faa..0e4d962 100644 --- a/reference/scp1.html +++ b/reference/scp1.html @@ -19,7 +19,7 @@ scp - 1.13.5 + 1.13.6 diff --git a/reference/scpAnnotateResults.html b/reference/scpAnnotateResults.html index 36b30eb..15326af 100644 --- a/reference/scpAnnotateResults.html +++ b/reference/scpAnnotateResults.html @@ -27,7 +27,7 @@ scp - 1.13.5 + 1.13.6