update the report

imminfo · May 13, 2015 · 6f326da · 6f326da
1 parent 45663e4
commit 6f326da
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/inst/crossanalysis.report.Rmd b/inst/crossanalysis.report.Rmd
@@ -113,14 +113,14 @@ vis.gene.usage(immdata, HUMAN_TRBJ, .coord.flip=F, .ncol = 2)
 
 ### V-segments Jennsen - Shannon Divergence among repertoires
 
-```{r vdiv, fig.width=13,warning=FALSE,message=F}
+```{r vdiv, fig.width=13,warning=FALSE,message=F,prompt=FALSE}
 res <- js.div.seg(immdata, HUMAN_TRBV, .frame='all', .verbose = F)
 vis.heatmap(round(res, 5))
 ```
 
 ### V-segments Jennsen - Shannon Divergence radarplot
 
-```{r radars, fig.width=13,warning=FALSE,message=F}
+```{r radars, fig.width=13,warning=FALSE,message=F,prompt=FALSE}
 res <- js.div.seg(immdata, HUMAN_TRBV, .frame='all', .verbose = F)
 vis.radarlike(res, .ncol = 2)
 ```
@@ -139,7 +139,7 @@ pca.segments(immdata)
 ### PCA on V-J segments statistics
 
 ```{r pcavj,warning=FALSE,message=F}
-pca.segments.2D(immdata)
+pca.segments.2D(immdata, .genes = list(HUMAN_TRBV, HUMAN_TRBJ))
 ```