diff --git a/OHCA.scss b/OHCA.scss index 4a3d4fb..ecf14bc 100644 --- a/OHCA.scss +++ b/OHCA.scss @@ -41,8 +41,12 @@ div.sidebar-item-container .active, div.sidebar-item-container .show>.nav-link, font-weight: 800; } -/* right navbar ------------------------------------------------------ */ +#quarto-sidebar { + transition: width .15s ease-in; + padding: 14px 10%; +} +/* right navbar ------------------------------------------------------ */ .sidebar nav[role=doc-toc] ul>li>a.active, .sidebar nav[role=doc-toc] ul>li>ul>li>a.active { // border-left: 4px solid #480f1f; diff --git a/index.qmd b/index.qmd index 919373b..02f5fe4 100644 --- a/index.qmd +++ b/index.qmd @@ -5,14 +5,14 @@ reference-section-title: References bibliography: bibliography.bib --- -# Welcome {-} - ```{r} #| echo: false source("_common.R") .gh_url <- file.path('https://github.com', rmarkdown::metadata[['github-repo']]) ``` +# Welcome {-} + This is the landing page of the **"Orchestrating Hi-C analysis with Bioconductor"** book. **The primary aim of this book is to introduce the `R` user to Hi-C analysis**. This book starts with key concepts important for the analysis of chromatin conformation capture and then diff --git a/interoperability.qmd b/interoperability.qmd index fcda589..bb5e176 100644 --- a/interoperability.qmd +++ b/interoperability.qmd @@ -34,6 +34,8 @@ library(HiCExperiment) library(HiContactsData) library(hicrep) library(multiHiCcompare) +library(dplyr) +library(tidyr) coolf_wt <- HiContactsData('yeast_wt', 'mcool') coolf_eco1 <- HiContactsData('yeast_eco1', 'mcool') @@ -215,7 +217,7 @@ is also already taken care of, when working with Hi-C matrices in modern formats ::: Based on these facts, we can simplify the binomial test function provided by -`GOTHiC` so that it can directly used binned interactions imported as a +`GOTHiC` so that it can directly used binned interactions imported as a `HiCExperiment` object in `R`. ```{r}