From d325278e5a32cc6aa92e441fa6e5c017c2a00efe Mon Sep 17 00:00:00 2001 From: Gene233 <44050457+Gene233@users.noreply.github.com> Date: Tue, 26 Mar 2024 04:43:57 +0000 Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20DavisLab?= =?UTF-8?q?oratory/smartid@a72ecd64066d968857f8fcf68689636fb51ef85f=20?= =?UTF-8?q?=F0=9F=9A=80?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- 404.html | 2 +- LICENSE-text.html | 2 +- LICENSE.html | 2 +- articles/index.html | 2 +- articles/smartid_Demo.html | 12 ++++++------ authors.html | 6 +++--- index.html | 2 +- news/index.html | 6 +++++- pkgdown.yml | 2 +- reference/cal_score.html | 2 +- reference/cal_score_init.html | 2 +- reference/gs_score.html | 4 ++-- reference/gs_score_init.html | 2 +- reference/iae.html | 2 +- reference/iae_hdb.html | 2 +- reference/iae_igm.html | 2 +- reference/iae_m.html | 2 +- reference/iae_prob.html | 2 +- reference/iae_rf.html | 2 +- reference/iae_sd.html | 2 +- reference/idf.html | 2 +- reference/idf_hdb.html | 2 +- reference/idf_iae_methods.html | 2 +- reference/idf_igm.html | 2 +- reference/idf_m.html | 2 +- reference/idf_prob.html | 2 +- reference/idf_rf.html | 2 +- reference/idf_sd.html | 2 +- reference/index.html | 2 +- reference/markers_hdbscan.html | 2 +- reference/markers_mclust.html | 2 +- reference/markers_mixmdl.html | 2 +- reference/ova_score_boxplot.html | 2 +- reference/scale_mgm.html | 2 +- reference/score_barplot.html | 2 +- reference/sim_sce_test.html | 2 +- reference/sin_score_boxplot.html | 2 +- reference/smartid_Package.html | 2 +- reference/tf.html | 2 +- reference/top_markers.html | 2 +- reference/top_markers_abs.html | 2 +- reference/top_markers_glm.html | 2 +- reference/top_markers_init.html | 2 +- 43 files changed, 55 insertions(+), 51 deletions(-) diff --git a/404.html b/404.html index cb31853..fa4aa0c 100644 --- a/404.html +++ b/404.html @@ -32,7 +32,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/LICENSE-text.html b/LICENSE-text.html index 422a14a..d10461f 100644 --- a/LICENSE-text.html +++ b/LICENSE-text.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/LICENSE.html b/LICENSE.html index 950211a..759fed4 100644 --- a/LICENSE.html +++ b/LICENSE.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/articles/index.html b/articles/index.html index 03f2533..b2852f3 100644 --- a/articles/index.html +++ b/articles/index.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/articles/smartid_Demo.html b/articles/smartid_Demo.html index 8379d68..c7105fe 100644 --- a/articles/smartid_Demo.html +++ b/articles/smartid_Demo.html @@ -33,7 +33,7 @@ smartid - 0.99.1 + 0.99.2 @@ -89,7 +89,7 @@

Jinjin Australia
chen.j@wehi.edu.au -

22 Mar 2024

+

26 Mar 2024

Source: vignettes/smartid_Demo.Rmd @@ -245,7 +245,7 @@

Score Samples) ) #> user system elapsed -#> 0.196 0.008 0.204 +#> 0.206 0.000 0.206 ## score and tf,idf,iae all saved assays(data_sim) @@ -445,7 +445,7 @@

Score Samples ) ) #> user system elapsed -#> 0.137 0.016 0.153 +#> 0.123 0.029 0.151 ## new score is saved and tf,idf,iae all updated assays(data_sim) @@ -528,7 +528,7 @@

SessionInfo#> [9] GenomicRanges_1.54.1 GenomeInfoDb_1.38.8 #> [11] IRanges_2.36.0 S4Vectors_0.40.2 #> [13] BiocGenerics_0.48.1 MatrixGenerics_1.14.0 -#> [15] matrixStats_1.2.0 smartid_0.99.1 +#> [15] matrixStats_1.2.0 smartid_0.99.2 #> [17] BiocStyle_2.30.0 #> #> loaded via a namespace (and not attached): @@ -548,7 +548,7 @@

SessionInfo#> [27] highr_0.10 DelayedArray_0.28.0 #> [29] BiocParallel_1.36.0 irlba_2.3.5.1 #> [31] parallel_4.3.2 R6_2.5.1 -#> [33] bslib_0.6.1 stringi_1.8.3 +#> [33] bslib_0.6.2 stringi_1.8.3 #> [35] jquerylib_0.1.4 Rcpp_1.0.12 #> [37] bookdown_0.38 knitr_1.45 #> [39] mixtools_2.0.0 splines_4.3.2 diff --git a/authors.html b/authors.html index d8bb898..9f6f814 100644 --- a/authors.html +++ b/authors.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 @@ -73,13 +73,13 @@

Citation

Chen J (2024). smartid: Scoring and Marker Selection Method Based on Modified TF-IDF. -R package version 0.99.1, https://davislaboratory.github.io/smartid. +R package version 0.99.2, https://davislaboratory.github.io/smartid. 

@Manual{,
   title = {smartid: Scoring and Marker Selection Method Based on Modified TF-IDF},
   author = {Jinjin Chen},
   year = {2024},
-  note = {R package version 0.99.1},
+  note = {R package version 0.99.2},
   url = {https://davislaboratory.github.io/smartid},
 }
diff --git a/index.html b/index.html index cf6eabf..e8e9813 100644 --- a/index.html +++ b/index.html @@ -37,7 +37,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/news/index.html b/news/index.html index 1ba1816..bf561e6 100644 --- a/news/index.html +++ b/news/index.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 @@ -64,6 +64,10 @@

smartid 0.99.0<

smartid 0.99.1

+
+

smartid 0.99.2

+
diff --git a/pkgdown.yml b/pkgdown.yml index a52eed5..0a25858 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -3,5 +3,5 @@ pkgdown: 2.0.7 pkgdown_sha: ~ articles: smartid_Demo: smartid_Demo.html -last_built: 2024-03-22T03:56Z +last_built: 2024-03-26T04:42Z diff --git a/reference/cal_score.html b/reference/cal_score.html index 77b4033..3d5a26a 100644 --- a/reference/cal_score.html +++ b/reference/cal_score.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/cal_score_init.html b/reference/cal_score_init.html index 22d02b0..ee64c16 100644 --- a/reference/cal_score_init.html +++ b/reference/cal_score_init.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/gs_score.html b/reference/gs_score.html index 15ebdfc..36ecc9d 100644 --- a/reference/gs_score.html +++ b/reference/gs_score.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 @@ -82,7 +82,7 @@

Arguments

features
-

vector, feature names to compute score

+

vector or named list, feature names to compute score

slot
diff --git a/reference/gs_score_init.html b/reference/gs_score_init.html index 8a4b2f5..e387314 100644 --- a/reference/gs_score_init.html +++ b/reference/gs_score_init.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/iae.html b/reference/iae.html index 32d10bd..fa4dd2a 100644 --- a/reference/iae.html +++ b/reference/iae.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/iae_hdb.html b/reference/iae_hdb.html index 319972d..d59b577 100644 --- a/reference/iae_hdb.html +++ b/reference/iae_hdb.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/iae_igm.html b/reference/iae_igm.html index 3fb167c..65ee471 100644 --- a/reference/iae_igm.html +++ b/reference/iae_igm.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/iae_m.html b/reference/iae_m.html index 571ba0e..7a247b9 100644 --- a/reference/iae_m.html +++ b/reference/iae_m.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/iae_prob.html b/reference/iae_prob.html index 41b1e1c..7bfc260 100644 --- a/reference/iae_prob.html +++ b/reference/iae_prob.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/iae_rf.html b/reference/iae_rf.html index 92b4327..788cf62 100644 --- a/reference/iae_rf.html +++ b/reference/iae_rf.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/iae_sd.html b/reference/iae_sd.html index 83e4bd9..5da6bca 100644 --- a/reference/iae_sd.html +++ b/reference/iae_sd.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf.html b/reference/idf.html index c0e4080..c78e085 100644 --- a/reference/idf.html +++ b/reference/idf.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf_hdb.html b/reference/idf_hdb.html index c240c77..271e61a 100644 --- a/reference/idf_hdb.html +++ b/reference/idf_hdb.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf_iae_methods.html b/reference/idf_iae_methods.html index 47f06c3..bf3e297 100644 --- a/reference/idf_iae_methods.html +++ b/reference/idf_iae_methods.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf_igm.html b/reference/idf_igm.html index 343613a..7727ac9 100644 --- a/reference/idf_igm.html +++ b/reference/idf_igm.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf_m.html b/reference/idf_m.html index 94cf424..96a4c6e 100644 --- a/reference/idf_m.html +++ b/reference/idf_m.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf_prob.html b/reference/idf_prob.html index 6f885ef..9ee1279 100644 --- a/reference/idf_prob.html +++ b/reference/idf_prob.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf_rf.html b/reference/idf_rf.html index ccc282d..7ed8ba8 100644 --- a/reference/idf_rf.html +++ b/reference/idf_rf.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/idf_sd.html b/reference/idf_sd.html index 644008f..dd531b4 100644 --- a/reference/idf_sd.html +++ b/reference/idf_sd.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/index.html b/reference/index.html index 958eae5..ecfc3b8 100644 --- a/reference/index.html +++ b/reference/index.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/markers_hdbscan.html b/reference/markers_hdbscan.html index 991bf42..22b894c 100644 --- a/reference/markers_hdbscan.html +++ b/reference/markers_hdbscan.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/markers_mclust.html b/reference/markers_mclust.html index df8ed08..8a843a4 100644 --- a/reference/markers_mclust.html +++ b/reference/markers_mclust.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/markers_mixmdl.html b/reference/markers_mixmdl.html index ce3e16a..229ef18 100644 --- a/reference/markers_mixmdl.html +++ b/reference/markers_mixmdl.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/ova_score_boxplot.html b/reference/ova_score_boxplot.html index 630995d..333b13b 100644 --- a/reference/ova_score_boxplot.html +++ b/reference/ova_score_boxplot.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/scale_mgm.html b/reference/scale_mgm.html index b6ebefe..8651f39 100644 --- a/reference/scale_mgm.html +++ b/reference/scale_mgm.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/score_barplot.html b/reference/score_barplot.html index 7bd7d09..e99d987 100644 --- a/reference/score_barplot.html +++ b/reference/score_barplot.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/sim_sce_test.html b/reference/sim_sce_test.html index c069778..e3b1669 100644 --- a/reference/sim_sce_test.html +++ b/reference/sim_sce_test.html @@ -18,7 +18,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/sin_score_boxplot.html b/reference/sin_score_boxplot.html index fce0e67..74f1a11 100644 --- a/reference/sin_score_boxplot.html +++ b/reference/sin_score_boxplot.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/smartid_Package.html b/reference/smartid_Package.html index 08259db..ce51a3d 100644 --- a/reference/smartid_Package.html +++ b/reference/smartid_Package.html @@ -21,7 +21,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/tf.html b/reference/tf.html index 65842e5..6fefe3c 100644 --- a/reference/tf.html +++ b/reference/tf.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/top_markers.html b/reference/top_markers.html index c992dd3..3a5b9f3 100644 --- a/reference/top_markers.html +++ b/reference/top_markers.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/top_markers_abs.html b/reference/top_markers_abs.html index 625a3ef..08e616b 100644 --- a/reference/top_markers_abs.html +++ b/reference/top_markers_abs.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/top_markers_glm.html b/reference/top_markers_glm.html index f0f1854..c10bf25 100644 --- a/reference/top_markers_glm.html +++ b/reference/top_markers_glm.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2 diff --git a/reference/top_markers_init.html b/reference/top_markers_init.html index 1a85152..00a85fe 100644 --- a/reference/top_markers_init.html +++ b/reference/top_markers_init.html @@ -17,7 +17,7 @@ smartid - 0.99.1 + 0.99.2