From 48761d7fc2e484bbc6f51a930b76938c51c76756 Mon Sep 17 00:00:00 2001 From: HDash <16350928+HDash@users.noreply.github.com> Date: Thu, 11 Jul 2024 16:51:36 +0000 Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20neurogen?= =?UTF-8?q?omics/MotifPeeker@a92938db87097d56dd19d553cc746f048a20eff8=20?= =?UTF-8?q?=F0=9F=9A=80?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- articles/MotifPeeker.html | 9 +++++---- pkgdown.yml | 2 +- reference/MotifPeeker.html | 2 +- reference/check_ENCODE.html | 2 +- reference/check_JASPAR.html | 2 +- reference/find_motifs.html | 4 ++-- reference/get_JASPARCORE.html | 2 +- reference/plot_enrichment_individual.html | 2 +- reference/save_peak_file.html | 2 +- reference/to_plotly.html | 2 +- search.json | 2 +- 11 files changed, 16 insertions(+), 15 deletions(-) diff --git a/articles/MotifPeeker.html b/articles/MotifPeeker.html index b07b883..19e3ea1 100644 --- a/articles/MotifPeeker.html +++ b/articles/MotifPeeker.html @@ -99,9 +99,10 @@

IntroductionRun MotifPeeker= TRUE, verbose = TRUE ) -
## [1] "/tmp/RtmpdYw9WH/MotifPeeker_20240711_164356"
+
## [1] "/tmp/RtmpRs2vxh/MotifPeeker_20240711_165039"

Required Inputs

diff --git a/pkgdown.yml b/pkgdown.yml index 4dc8453..6f90403 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -5,7 +5,7 @@ articles: docker: docker.html MotifPeeker: MotifPeeker.html troubleshooting: troubleshooting.html -last_built: 2024-07-11T16:41Z +last_built: 2024-07-11T16:48Z urls: reference: https://neurogenomics.github.io/MotifPeeker/reference article: https://neurogenomics.github.io/MotifPeeker/articles diff --git a/reference/MotifPeeker.html b/reference/MotifPeeker.html index bbb27c3..9c9d5e2 100644 --- a/reference/MotifPeeker.html +++ b/reference/MotifPeeker.html @@ -321,7 +321,7 @@

Examples quiet = TRUE, verbose = FALSE ) -#> [1] "/tmp/RtmpqJkFn6/MotifPeeker_20240711_164200" +#> [1] "/tmp/RtmpGHVrqH/MotifPeeker_20240711_164845"

diff --git a/reference/check_ENCODE.html b/reference/check_ENCODE.html index a26c92e..dfa5a21 100644 --- a/reference/check_ENCODE.html +++ b/reference/check_ENCODE.html @@ -83,7 +83,7 @@

Examples check_ENCODE("ENCFF109VAD", expect_format = "bam") } #> BFC2 -#> "/github/home/.cache/R/BiocFileCache/122153be3c4_ENCFF109VAD.bam" +#> "/github/home/.cache/R/BiocFileCache/1223b539cd2_ENCFF109VAD.bam" diff --git a/reference/check_JASPAR.html b/reference/check_JASPAR.html index f296b59..6f58386 100644 --- a/reference/check_JASPAR.html +++ b/reference/check_JASPAR.html @@ -74,7 +74,7 @@

Value

Examples

check_JASPAR("MA1930.2")
 #>                                                               BFC3 
-#> "/github/home/.cache/R/BiocFileCache/12211aa04211_MA1930.2.jaspar" 
+#> "/github/home/.cache/R/BiocFileCache/12232cd753fd_MA1930.2.jaspar"
diff --git a/reference/find_motifs.html b/reference/find_motifs.html index ee242d1..b507438 100644 --- a/reference/find_motifs.html +++ b/reference/find_motifs.html @@ -144,7 +144,7 @@

Examples#> icscore nsites pval type pseudocount bkg best_match_name #> 1 15.22492 54 0.12 PCM 0 0.241, 0.... MA0139.2 #> best_match_altname best_db_name -#> 1 CTCF 78e52b586a6_JASPAR2024_CORE_non-redundant_pfms_meme.txt +#> 1 CTCF 77f1610607c_JASPAR2024_CORE_non-redundant_pfms_meme.txt #> best_match_offset best_match_pval best_match_eval best_match_qval #> 1 2 3.33e-13 7.81e-10 1.56e-09 #> best_match_strand best_match_motif tomtom @@ -158,7 +158,7 @@

Examples#> pval type pseudocount bkg best_match_name best_match_altname #> 1 0.5 PCM 0 0.241, 0.... MA1931.1 ELK1::HOXA1 #> best_db_name best_match_offset -#> 1 78e52b586a6_JASPAR2024_CORE_non-redundant_pfms_meme.txt 3 +#> 1 77f1610607c_JASPAR2024_CORE_non-redundant_pfms_meme.txt 3 #> best_match_pval best_match_eval best_match_qval best_match_strand #> 1 1.55e-05 0.0365 0.0725 + #> best_match_motif tomtom diff --git a/reference/get_JASPARCORE.html b/reference/get_JASPARCORE.html index f2edb3c..cc6c3e1 100644 --- a/reference/get_JASPARCORE.html +++ b/reference/get_JASPARCORE.html @@ -70,7 +70,7 @@

Value

Examples

get_JASPARCORE()
 #>                                                                                          BFC1 
-#> "/github/home/.cache/R/BiocFileCache/78e52b586a6_JASPAR2024_CORE_non-redundant_pfms_meme.txt" 
+#> "/github/home/.cache/R/BiocFileCache/77f1610607c_JASPAR2024_CORE_non-redundant_pfms_meme.txt"
diff --git a/reference/plot_enrichment_individual.html b/reference/plot_enrichment_individual.html index 5bd4766..27c0fcc 100644 --- a/reference/plot_enrichment_individual.html +++ b/reference/plot_enrichment_individual.html @@ -165,7 +165,7 @@

Examples print(plt) } #> <div class="plotly html-widget html-fill-item" id="htmlwidget-8a1f8f4a61c98a07d1d5" style="width:100%;height:400px;"></div> -#> <script type="application/json" data-for="htmlwidget-8a1f8f4a61c98a07d1d5">{"x":{"data":[{"orientation":"v","width":[0.89999999999999991,0.90000000000000013,0.90000000000000036,0.90000000000000036,0.90000000000000036,0.90000000000000036],"base":[66,50,48,49,15,3],"x":[1,2,3,4,5,6],"y":[34,70,79,78,67,54],"text":["<b>Peak Count:<\/b> 34 (68.42%)","<b>Peak Count:<\/b> 70 (72.53%)","<b>Peak Count:<\/b> 79 (62.2%)","<b>Peak Count:<\/b> 78 (61.42%)","<b>Peak Count:<\/b> 67 (81.71%)","<b>Peak Count:<\/b> 54 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","x"]},"highlight":{"on":"plotly_click","persistent":false,"dynamic":false,"selectize":false,"opacityDim":0.20000000000000001,"selected":{"opacity":1},"debounce":0},"shinyEvents":["plotly_hover","plotly_click","plotly_selected","plotly_relayout","plotly_brushed","plotly_brushing","plotly_clickannotation","plotly_doubleclick","plotly_deselect","plotly_afterplot","plotly_sunburstclick"],"base_url":"https://plot.ly"},"evals":[],"jsHooks":[]}</script> +#> <script type="application/json" data-for="htmlwidget-8a1f8f4a61c98a07d1d5">{"x":{"data":[{"orientation":"v","width":[0.89999999999999991,0.90000000000000013,0.90000000000000036,0.90000000000000036,0.90000000000000036,0.90000000000000036],"base":[66,50,48,49,15,3],"x":[1,2,3,4,5,6],"y":[34,70,79,78,67,54],"text":["<b>Peak Count:<\/b> 34 (68.42%)","<b>Peak Count:<\/b> 70 (72.53%)","<b>Peak Count:<\/b> 79 (62.2%)","<b>Peak Count:<\/b> 78 (61.42%)","<b>Peak Count:<\/b> 67 (81.71%)","<b>Peak Count:<\/b> 54 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","x"]},"highlight":{"on":"plotly_click","persistent":false,"dynamic":false,"selectize":false,"opacityDim":0.20000000000000001,"selected":{"opacity":1},"debounce":0},"shinyEvents":["plotly_hover","plotly_click","plotly_selected","plotly_relayout","plotly_brushed","plotly_brushing","plotly_clickannotation","plotly_doubleclick","plotly_deselect","plotly_afterplot","plotly_sunburstclick"],"base_url":"https://plot.ly"},"evals":[],"jsHooks":[]}</script> diff --git a/reference/save_peak_file.html b/reference/save_peak_file.html index 46d563a..794f7f3 100644 --- a/reference/save_peak_file.html +++ b/reference/save_peak_file.html @@ -99,7 +99,7 @@

Examples out <- save_peak_file(CTCF_ChIP_peaks, save = TRUE, "test_peak_file.bed") print(out) -#> [1] "/tmp/RtmpqJkFn6/test_peak_file.bed" +#> [1] "/tmp/RtmpGHVrqH/test_peak_file.bed" diff --git a/reference/to_plotly.html b/reference/to_plotly.html index 7d4bbf0..0852d7f 100644 --- a/reference/to_plotly.html +++ b/reference/to_plotly.html @@ -108,7 +108,7 @@

Examplesp <- ggplot2::ggplot(x, ggplot2::aes(x = a, y = b)) + ggplot2::geom_point() to_plotly(p, html_tags = FALSE)
- +