Merge pull request #68 from YosefLab/staging

Update links in documentation

Author: deto

README.md

@@ -38,5 +38,7 @@ More information can be found throughout the rest of the tutorials on the [Docum
 
 ## Sample Output
 
-[Click here for an example output report of ~9,000 CBMC's sequenced with the CITE-seq protocol](http://s133.millennium.berkeley.edu:7703/)
 ![Screenshot of report](https://github.com/YosefLab/VISION/blob/master/docs/example_report.png)
+
+- [Live output example: ~9,000 CBMC's sequenced with the CITE-seq protocol](http://s133.cs.berkeley.edu:7703/)
+- [Tour of the output report user interface(PDF)](https://github.com/YosefLab/VISION/raw/master/docs/VISION_Report_Manual.pdf)

docs/index.html

@@ -4,6 +4,8 @@
 
 VISION aids in the interpretation of single-cell RNA-seq (scRNA-seq) data by selecting for gene signatures which describe coordinated variation between cells.  While the software only requires an expression matrix and a signature library (available in online databases), it is also designed to integrate into existing scRNA-seq analysis pipelines by taking advantage of precomputed dimensionality reductions, trajectory inferences or clustering results.  The results of this analysis are made available through a dynamic web-app which can be shared with collaborators without requiring them to install any additional software.
 
+* [Nature Communications publication](https://www.nature.com/articles/s41467-019-12235-0)
+* [GitHub](https://www.github.com/yoseflab/vision)
 * [Biorxiv Preprint](https://www.biorxiv.org/content/early/2018/08/29/403055)
 
 ## Installing VISION
@@ -36,5 +38,5 @@ You can refer to the [Getting Started page](https://yoseflab.github.io/VISION/ar
 
 ![](example_report.png)
 
-- [Live output example: ~9,000 CBMC's sequenced with the CITE-seq protocol](http://s124.millennium.berkeley.edu:7703/)
+- [Live output example: ~9,000 CBMC's sequenced with the CITE-seq protocol](http://s133.cs.berkeley.edu:7703/)
 - [Tour of the output report user interface(PDF)](https://github.com/YosefLab/VISION/raw/master/docs/VISION_Report_Manual.pdf)