From 99c403d49df48687e6bd7a98e5ba164a1d2d73c7 Mon Sep 17 00:00:00 2001 From: tiagomaie Date: Wed, 13 Dec 2023 13:22:05 +0100 Subject: [PATCH] update docs --- DESCRIPTION | 2 +- README.md | 18 ++-- docs/404.html | 2 +- docs/LICENSE.html | 2 +- docs/articles/index.html | 2 +- docs/authors.html | 6 +- docs/index.html | 84 ++++++++++++------ docs/pkgdown.yml | 2 +- .../figures/README-deconv_bar_plt-1.png | Bin 0 -> 17032 bytes .../figures/README-deconv_pred_obs_plt-1.png | Bin 0 -> 237738 bytes .../figures/README-deconv_rank_plt-1.png | Bin 0 -> 14835 bytes .../reference/figures/README-dmsv_plots-1.png | Bin 0 -> 25149 bytes .../figures/README-hl_feats_plt-1.png | Bin 0 -> 60725 bytes .../figures/README-label_feats-1.png | Bin 0 -> 54725 bytes docs/reference/figures/README-plot_sigs-1.png | Bin 0 -> 47876 bytes .../figures/README-unnamed-chunk-13-1.png | Bin 14835 -> 237738 bytes .../figures/README-unnamed-chunk-6-1.png | Bin 25149 -> 47876 bytes .../figures/README-unnamed-chunk-7-1.png | Bin 60725 -> 25149 bytes .../figures/README-unnamed-chunk-8-1.png | Bin 54725 -> 60725 bytes .../figures/README-unnamed-chunk-9-1.png | Bin 17032 -> 54725 bytes docs/reference/index.html | 2 +- docs/search.json | 2 +- 22 files changed, 77 insertions(+), 45 deletions(-) create mode 100644 docs/reference/figures/README-deconv_bar_plt-1.png create mode 100644 docs/reference/figures/README-deconv_pred_obs_plt-1.png create mode 100644 docs/reference/figures/README-deconv_rank_plt-1.png create mode 100644 docs/reference/figures/README-dmsv_plots-1.png create mode 100644 docs/reference/figures/README-hl_feats_plt-1.png create mode 100644 docs/reference/figures/README-label_feats-1.png create mode 100644 docs/reference/figures/README-plot_sigs-1.png diff --git a/DESCRIPTION b/DESCRIPTION index 8d2e484..78e9019 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -2,7 +2,7 @@ Type: Package Package: CimpleG Title: CimpleG - Individual/Single CpG sites For Classification and Deconvolution -Version: 0.0.5.9024 +Version: 0.0.5.9028 Date: 2023-12-13 Authors@R: person("Tiago", "F.V. Maié", , "tiagomaie@hotmail.com", role = c("aut", "cre")) diff --git a/README.md b/README.md index 036a2ae..b956759 100644 --- a/README.md +++ b/README.md @@ -8,7 +8,7 @@ CimpleG, an R package to find (small) CpG signatures. [![R-CMD-check](https://github.com/CostaLab/CimpleG/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/CostaLab/CimpleG/actions/workflows/R-CMD-check.yaml) -[![](https://img.shields.io/badge/devel%20version-0.0.5.9024-green.svg)](https://github.com/CostaLab/CimpleG) +[![](https://img.shields.io/badge/devel%20version-0.0.5.9028-green.svg)](https://github.com/CostaLab/CimpleG) [![](https://img.shields.io/badge/doi-10.1186/s13059--023--03000--0-blue.svg)](https://doi.org/10.1186/s13059-023-03000-0) ## Installation @@ -218,10 +218,10 @@ cimpleg_hyper <- CimpleG( "fibroblasts" ) ) -#> Training for target 'neurons' with 'CimpleG' has finished.: 0.34 sec elapsed -#> Training for target 'glia' with 'CimpleG' has finished.: 0.286 sec elapsed -#> Training for target 'blood_cells' with 'CimpleG' has finished.: 0.345 sec elapsed -#> Training for target 'fibroblasts' with 'CimpleG' has finished.: 0.307 sec elapsed +#> Training for target 'neurons' with 'CimpleG' has finished.: 0.342 sec elapsed +#> Training for target 'glia' with 'CimpleG' has finished.: 0.304 sec elapsed +#> Training for target 'blood_cells' with 'CimpleG' has finished.: 0.352 sec elapsed +#> Training for target 'fibroblasts' with 'CimpleG' has finished.: 0.317 sec elapsed deconv_hyper <- run_deconvolution( cpg_obj = cimpleg_hyper, @@ -244,10 +244,10 @@ cimpleg_3sigs <- CimpleG( "fibroblasts" ) ) -#> Training for target 'neurons' with 'CimpleG' has finished.: 0.447 sec elapsed -#> Training for target 'glia' with 'CimpleG' has finished.: 0.392 sec elapsed -#> Training for target 'blood_cells' with 'CimpleG' has finished.: 0.451 sec elapsed -#> Training for target 'fibroblasts' with 'CimpleG' has finished.: 0.39 sec elapsed +#> Training for target 'neurons' with 'CimpleG' has finished.: 0.471 sec elapsed +#> Training for target 'glia' with 'CimpleG' has finished.: 0.39 sec elapsed +#> Training for target 'blood_cells' with 'CimpleG' has finished.: 0.459 sec elapsed +#> Training for target 'fibroblasts' with 'CimpleG' has finished.: 0.403 sec elapsed deconv_3sigs <- run_deconvolution( cpg_obj = cimpleg_3sigs, diff --git a/docs/404.html b/docs/404.html index 87971f6..30dca71 100644 --- a/docs/404.html +++ b/docs/404.html @@ -31,7 +31,7 @@ CimpleG - 0.0.5.9024 + 0.0.5.9028