From ef3d1bb3e49a2266bcdebf2566bad8dd25ea6ba8 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Fri, 8 Jul 2022 11:03:25 +0200
Subject: [PATCH] update img path
---
.gitlab-ci.yml | 2 --
1_scrnaseq_data/scrnaseq_data.Rmd | 6 ++----
5_pseudo_time/pseudo_time.Rmd | 9 ++++++---
3 files changed, 8 insertions(+), 9 deletions(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index cde3b5d..7f28941 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -3,8 +3,6 @@ pages:
image: rocker/r-rmd
script:
- mkdir -p public/img
- - ls -l
- - pwd
- make
- cp 1_scrnaseq_data/scrnaseq_data.pdf 2_normalization/normalization.pdf 3_dimension_reduction/dimension_reduction.pdf 4_clustering/clustering.pdf 5_pseudo_time/pseudo_time.pdf 6_dea/dea.pdf public/
artifacts:
diff --git a/1_scrnaseq_data/scrnaseq_data.Rmd b/1_scrnaseq_data/scrnaseq_data.Rmd
index b2bbf4c..766e43b 100644
--- a/1_scrnaseq_data/scrnaseq_data.Rmd
+++ b/1_scrnaseq_data/scrnaseq_data.Rmd
@@ -789,8 +789,7 @@ Do we keep reads mapping after the annotated 3' UTR ?
\begin{columns}
\column{0.65\textwidth}
\begin{center}
-\includegraphics[width=\textwidth]{img/discared_reads.png
-}
+\includegraphics[width=\textwidth]{img/discared_reads.png}
\end{center}
\column{0.35\textwidth}
{\bf Your best marker genes could be in the small percent of genes lost}
@@ -803,8 +802,7 @@ Why bother ?
\vspace{-1.5em}
\begin{center}
-\includegraphics[width=.8\textwidth]{img/full_length_vs_3prim.png
-}
+\includegraphics[width=.8\textwidth]{img/full_length_vs_3prim.png}
\end{center}
# Quantification
diff --git a/5_pseudo_time/pseudo_time.Rmd b/5_pseudo_time/pseudo_time.Rmd
index 178b511..36b215b 100644
--- a/5_pseudo_time/pseudo_time.Rmd
+++ b/5_pseudo_time/pseudo_time.Rmd
@@ -369,25 +369,28 @@ When we have a scRNASeq time serie we want:
## Waddington OT
+### Finding the best cell coupling
\begin{center}
\href{olivier gandrillon}{
- \includegraphics[width=0.5\textwidth]{img/coupling_1.png}
+ \includegraphics[width=0.4\textwidth]{img/coupling_1.png}
}
\end{center}
## Waddington OT
+### Finding the best cell coupling
\begin{center}
\href{olivier gandrillon}{
- \includegraphics[width=0.5\textwidth]{img/coupling_2.png}
+ \includegraphics[width=0.4\textwidth]{img/coupling_2.png}
}
\end{center}
## Waddington OT
+### Finding the best cell coupling
\begin{center}
\href{olivier gandrillon}{
- \includegraphics[width=0.5\textwidth]{img/coupling_3.png}
+ \includegraphics[width=0.4\textwidth]{img/coupling_3.png}
}
\end{center}
--
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