diff --git a/code/02-bulk_comparisons.Rmd b/code/02-bulk_comparisons.Rmd
index 68fc4fc..1af60ac 100644
--- a/code/02-bulk_comparisons.Rmd
+++ b/code/02-bulk_comparisons.Rmd
@@ -242,6 +242,21 @@ save(data_chip_stats, file = glue("{out}/data_chip_stats.Rda"))
 ```
 
 
+Count samples:
+
+```{r count_samples}
+
+data_chip_tidy %>%
+    left_join(meta %>% distinct(ID_paper, Group), by = "ID_paper") %>%
+    distinct(ID_paper, Group, Mark) %>%
+    group_by(Group, Mark) %>%
+    count() %>% 
+    filter(Group %in% c("HGG-H3.1/2K27M-Pons",
+                        "HGG-H3.3K27M-Pons",
+                        "HGG-H3.3K27M-Thal."))
+
+```
+
 ## Scatterplot for H3.1 vs H3.3 pons
 
 Here, we'll combine the DGE data with each of different source of ChIP-seq analysis,
diff --git a/code/02-bulk_comparisons.html b/code/02-bulk_comparisons.html
index 5c23dc5..2010ecb 100644
--- a/code/02-bulk_comparisons.html
+++ b/code/02-bulk_comparisons.html
@@ -190,7 +190,7 @@ <h4 class="author">Selin Jessa [<script type="text/javascript">
 document.write('<a h'+'ref'+'="ma'+'ilto'+':'+e+'" clas'+'s="em' + 'ail">'+e+'<\/'+'a'+'>');
 // -->
 </script><noscript>selin.jessa at mail dot mcgill dot ca</noscript>]</h4>
-<h4 class="date">08 September, 2022</h4>
+<h4 class="date">18 October, 2022</h4>
 
 </div>
 
@@ -400,6 +400,20 @@ <h2><span class="header-section-number">6.1</span> Load data</h2>
     pivot_wider(names_from = statistic, values_from = value)
 
 save(data_chip_stats, file = glue(&quot;{out}/data_chip_stats.Rda&quot;))</code></pre>
+<p>Count samples:</p>
+<pre class="r"><code>data_chip_tidy %&gt;%
+    left_join(meta %&gt;% distinct(ID_paper, Group), by = &quot;ID_paper&quot;) %&gt;%
+    distinct(ID_paper, Group, Mark) %&gt;%
+    group_by(Group, Mark) %&gt;%
+    count() %&gt;% 
+    filter(Group %in% c(&quot;HGG-H3.1/2K27M-Pons&quot;,
+                        &quot;HGG-H3.3K27M-Pons&quot;,
+                        &quot;HGG-H3.3K27M-Thal.&quot;))</code></pre>
+<div data-pagedtable="false">
+<script data-pagedtable-source type="application/json">
+{"columns":[{"label":["Group"],"name":[1],"type":["chr"],"align":["left"]},{"label":["Mark"],"name":[2],"type":["chr"],"align":["left"]},{"label":["n"],"name":[3],"type":["int"],"align":["right"]}],"data":[{"1":"HGG-H3.1/2K27M-Pons","2":"H3K27ac","3":"14"},{"1":"HGG-H3.1/2K27M-Pons","2":"H3K27me3","3":"3"},{"1":"HGG-H3.3K27M-Pons","2":"H3K27ac","3":"16"},{"1":"HGG-H3.3K27M-Pons","2":"H3K27me3","3":"6"},{"1":"HGG-H3.3K27M-Thal.","2":"H3K27ac","3":"5"},{"1":"HGG-H3.3K27M-Thal.","2":"H3K27me3","3":"4"}],"options":{"columns":{"min":{},"max":[10]},"rows":{"min":[10],"max":[10]},"pages":{}}}
+  </script>
+</div>
 </div>
 <div id="scatterplot-for-h3.1-vs-h3.3-pons" class="section level2">
 <h2><span class="header-section-number">6.2</span> Scatterplot for H3.1 vs H3.3 pons</h2>
@@ -496,11 +510,11 @@ <h2><span class="header-section-number">6.3</span> Scatterplot for H3.3 pons vs
 <div id="reproducibility" class="section level1">
 <h1><span class="header-section-number">7</span> Reproducibility</h1>
 <p>This document was last rendered on:</p>
-<pre><code>## 2022-09-08 15:08:33</code></pre>
+<pre><code>## 2022-10-18 14:17:13</code></pre>
 <p>The git repository and last commit:</p>
 <pre><code>## Local:    master /lustre06/project/6004736/sjessa/from_narval/HGG-oncohistones/public
 ## Remote:   master @ origin (git@github.com:fungenomics/HGG-oncohistones.git)
-## Head:     [4101e76] 2022-09-08: Update README.md</code></pre>
+## Head:     [8082a4d] 2022-10-18: Merge branch 'master' of github.com:fungenomics/HGG-oncohistones</code></pre>
 <p>The random seed was set with <code>set.seed(100)</code></p>
 <p>The R session info: <details></p>
 <pre><code>## Error in get(genname, envir = envir) : object 'testthat_print' not found</code></pre>
@@ -514,7 +528,7 @@ <h1><span class="header-section-number">7</span> Reproducibility</h1>
 ##  collate  en_CA.UTF-8                     
 ##  ctype    en_CA.UTF-8                     
 ##  tz       EST5EDT                         
-##  date     2022-09-08                      
+##  date     2022-10-18                      
 ## 
 ## ─ Packages ───────────────────────────────────────────────────────────────────
 ##  ! package        * version    date       lib
@@ -539,7 +553,6 @@ <h1><span class="header-section-number">7</span> Reproducibility</h1>
 ##  P ellipsis         0.3.2      2021-04-29 [?]
 ##  P evaluate         0.14       2019-05-28 [?]
 ##  P fansi            0.4.2      2021-01-15 [?]
-##  P farver           2.1.0      2021-02-28 [?]
 ##  P fastmap          1.1.0      2021-01-25 [?]
 ##  P feather        * 0.3.5      2019-09-15 [?]
 ##  P fitdistrplus     1.1-3      2020-12-05 [?]
@@ -557,7 +570,6 @@ <h1><span class="header-section-number">7</span> Reproducibility</h1>
 ##  P gridExtra        2.3        2017-09-09 [?]
 ##  P gtable           0.3.0      2019-03-25 [?]
 ##  P here           * 0.1        2017-05-28 [?]
-##  P highr            0.9        2021-04-16 [?]
 ##  P hms              1.0.0      2021-01-13 [?]
 ##  P htmltools        0.5.1.1    2021-01-22 [?]
 ##  P htmlwidgets      1.5.3      2020-12-10 [?]
@@ -571,7 +583,6 @@ <h1><span class="header-section-number">7</span> Reproducibility</h1>
 ##  P jsonlite         1.7.2      2020-12-09 [?]
 ##  P KernSmooth       2.23-15    2015-06-29 [?]
 ##  P knitr            1.33       2021-04-24 [?]
-##  P labeling         0.4.2      2020-10-20 [?]
 ##  P later            1.0.0      2019-10-04 [?]
 ##  P lattice          0.20-44    2021-05-02 [?]
 ##  P lazyeval         0.2.2      2019-03-15 [?]
@@ -698,8 +709,6 @@ <h1><span class="header-section-number">7</span> Reproducibility</h1>
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
-##  CRAN (R 3.6.1)                       
-##  CRAN (R 3.6.1)                       
 ##  Github (fungenomics/icytobox@730e8b8)
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
@@ -772,7 +781,6 @@ <h1><span class="header-section-number">7</span> Reproducibility</h1>
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
-##  CRAN (R 3.6.1)                       
 ##  Github (rmflight/testrmd@0735c20)    
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
@@ -791,14 +799,14 @@ <h1><span class="header-section-number">7</span> Reproducibility</h1>
 ##  CRAN (R 3.6.1)                       
 ## 
 ## [1] /lustre06/project/6004736/sjessa/from_narval/HGG-oncohistones/public/renv/library/R-3.6/x86_64-pc-linux-gnu
-## [2] /tmp/RtmpPXZ49F/renv-system-library
+## [2] /tmp/Rtmp7TyGB4/renv-system-library
 ## 
 ##  P ── Loaded and on-disk path mismatch.</code></pre>
 <p></details></p>
 <p>The resources requested when this document was last rendered:</p>
 <pre><code>## #SBATCH --time=01:00:00
 ## #SBATCH --cpus-per-task=1
-## #SBATCH --mem=10G</code></pre>
+## #SBATCH --mem=20G</code></pre>
 <hr />
 <!-- END OF END MATTER -->
 </div>
diff --git a/code/02-bulk_comparisons.md b/code/02-bulk_comparisons.md
index 9868e5d..93ff260 100644
--- a/code/02-bulk_comparisons.md
+++ b/code/02-bulk_comparisons.md
@@ -1,7 +1,7 @@
 ---
 title: "02 - Bulk RNAseq/ChIPseq comparisons"
 author: "Selin Jessa [[selin.jessa@mail.mcgill.ca](mailto:selin.jessa@mail.mcgill.ca)]"
-date: "08 September, 2022"
+date: "18 October, 2022"
 params:
   resources: "NOT SPECIFIED"
 output:
@@ -410,6 +410,27 @@ save(data_chip_stats, file = glue("{out}/data_chip_stats.Rda"))
 
 
 
+Count samples:
+
+
+
+```r
+data_chip_tidy %>%
+    left_join(meta %>% distinct(ID_paper, Group), by = "ID_paper") %>%
+    distinct(ID_paper, Group, Mark) %>%
+    group_by(Group, Mark) %>%
+    count() %>% 
+    filter(Group %in% c("HGG-H3.1/2K27M-Pons",
+                        "HGG-H3.3K27M-Pons",
+                        "HGG-H3.3K27M-Thal."))
+```
+
+<div data-pagedtable="false">
+  <script data-pagedtable-source type="application/json">
+{"columns":[{"label":["Group"],"name":[1],"type":["chr"],"align":["left"]},{"label":["Mark"],"name":[2],"type":["chr"],"align":["left"]},{"label":["n"],"name":[3],"type":["int"],"align":["right"]}],"data":[{"1":"HGG-H3.1/2K27M-Pons","2":"H3K27ac","3":"14"},{"1":"HGG-H3.1/2K27M-Pons","2":"H3K27me3","3":"3"},{"1":"HGG-H3.3K27M-Pons","2":"H3K27ac","3":"16"},{"1":"HGG-H3.3K27M-Pons","2":"H3K27me3","3":"6"},{"1":"HGG-H3.3K27M-Thal.","2":"H3K27ac","3":"5"},{"1":"HGG-H3.3K27M-Thal.","2":"H3K27me3","3":"4"}],"options":{"columns":{"min":{},"max":[10]},"rows":{"min":[10],"max":[10]},"pages":{}}}
+  </script>
+</div>
+
 ## Scatterplot for H3.1 vs H3.3 pons
 
 Here, we'll combine the DGE data with each of different source of ChIP-seq analysis,
@@ -586,7 +607,7 @@ This document was last rendered on:
 
 
 ```
-## 2022-09-08 15:08:33
+## 2022-10-18 14:17:13
 ```
 
 
@@ -598,7 +619,7 @@ The git repository and last commit:
 ```
 ## Local:    master /lustre06/project/6004736/sjessa/from_narval/HGG-oncohistones/public
 ## Remote:   master @ origin (git@github.com:fungenomics/HGG-oncohistones.git)
-## Head:     [4101e76] 2022-09-08: Update README.md
+## Head:     [8082a4d] 2022-10-18: Merge branch 'master' of github.com:fungenomics/HGG-oncohistones
 ```
 
 
@@ -627,7 +648,7 @@ The R session info:
 ##  collate  en_CA.UTF-8                     
 ##  ctype    en_CA.UTF-8                     
 ##  tz       EST5EDT                         
-##  date     2022-09-08                      
+##  date     2022-10-18                      
 ## 
 ## ─ Packages ───────────────────────────────────────────────────────────────────
 ##  ! package        * version    date       lib
@@ -652,7 +673,6 @@ The R session info:
 ##  P ellipsis         0.3.2      2021-04-29 [?]
 ##  P evaluate         0.14       2019-05-28 [?]
 ##  P fansi            0.4.2      2021-01-15 [?]
-##  P farver           2.1.0      2021-02-28 [?]
 ##  P fastmap          1.1.0      2021-01-25 [?]
 ##  P feather        * 0.3.5      2019-09-15 [?]
 ##  P fitdistrplus     1.1-3      2020-12-05 [?]
@@ -670,7 +690,6 @@ The R session info:
 ##  P gridExtra        2.3        2017-09-09 [?]
 ##  P gtable           0.3.0      2019-03-25 [?]
 ##  P here           * 0.1        2017-05-28 [?]
-##  P highr            0.9        2021-04-16 [?]
 ##  P hms              1.0.0      2021-01-13 [?]
 ##  P htmltools        0.5.1.1    2021-01-22 [?]
 ##  P htmlwidgets      1.5.3      2020-12-10 [?]
@@ -684,7 +703,6 @@ The R session info:
 ##  P jsonlite         1.7.2      2020-12-09 [?]
 ##  P KernSmooth       2.23-15    2015-06-29 [?]
 ##  P knitr            1.33       2021-04-24 [?]
-##  P labeling         0.4.2      2020-10-20 [?]
 ##  P later            1.0.0      2019-10-04 [?]
 ##  P lattice          0.20-44    2021-05-02 [?]
 ##  P lazyeval         0.2.2      2019-03-15 [?]
@@ -811,8 +829,6 @@ The R session info:
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
-##  CRAN (R 3.6.1)                       
-##  CRAN (R 3.6.1)                       
 ##  Github (fungenomics/icytobox@730e8b8)
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
@@ -885,7 +901,6 @@ The R session info:
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
-##  CRAN (R 3.6.1)                       
 ##  Github (rmflight/testrmd@0735c20)    
 ##  CRAN (R 3.6.1)                       
 ##  CRAN (R 3.6.1)                       
@@ -904,7 +919,7 @@ The R session info:
 ##  CRAN (R 3.6.1)                       
 ## 
 ## [1] /lustre06/project/6004736/sjessa/from_narval/HGG-oncohistones/public/renv/library/R-3.6/x86_64-pc-linux-gnu
-## [2] /tmp/RtmpPXZ49F/renv-system-library
+## [2] /tmp/Rtmp7TyGB4/renv-system-library
 ## 
 ##  P ── Loaded and on-disk path mismatch.
 ```
@@ -920,7 +935,7 @@ The resources requested when this document was last rendered:
 ```
 ## #SBATCH --time=01:00:00
 ## #SBATCH --cpus-per-task=1
-## #SBATCH --mem=10G
+## #SBATCH --mem=20G
 ```