diff --git a/_episodes/09-metabolomics.md b/_episodes/09-metabolomics.md
index 0a61839..233d16e 100644
--- a/_episodes/09-metabolomics.md
+++ b/_episodes/09-metabolomics.md
@@ -373,15 +373,13 @@ After this, write your email, so you know when your network is finished. Then cl
For more information about the rest of the parameters used for molecular networking:
-- (visit the GNPS documentation)[https://ccms-ucsd.github.io/GNPSDocumentation/networking/]
-- Also visit (Aron, A.T., Gentry, E.C., McPhail, K.L. et al. Reproducible molecular networking of untargeted mass spectrometry data using GNPS. Nat Protoc 15, 1954–1991 (2020))[https://doi.org/10.1038/s41596-020-0317-5]
+- [visit the GNPS documentation](https://ccms-ucsd.github.io/GNPSDocumentation/networking/)
+- Also visit [Aron, A.T., Gentry, E.C., McPhail, K.L. et al. Reproducible molecular networking of untargeted mass spectrometry data using GNPS. Nat Protoc 15, 1954–1991 (2020)](https://doi.org/10.1038/s41596-020-0317-5)
## Statistics analysis using FBMN STATS guide web server
Now we want to observe how different are the metabolic profiles of our samples. For that, we are going to calculate a Principal Coordinate Analysis (PCoA)
-https://fbmn-statsguide.gnps2.org/
-
Go into
[FBMN STATS guide](https://fbmn-statsguide.gnps2.org/)
@@ -392,32 +390,32 @@ Select "Data Preparation"
In file origin select "Quantification table and metadata files".
--In the Quantification Table section, select the MZMine output file "GM_workshop_Featurelist_complete_quant.csv" This table contains the information of the two strains and the media. We want to observe how different our samples' metabolomic profiles are, in comparison with the culture media.
-- in the Meta Data Table section, include our metadata file "metadata_table.tsv"
+- In the Quantification Table section, select the MZMine output file "GM_workshop_Featurelist_complete_quant.csv". This table contains the information of the two strains and the media. We want to observe how different our samples' metabolomic profiles are, in comparison with the culture media.
+- in the Meta Data Table section, include our metadata file "metadata_table.tsv".
-After loading your files, click "Submit Data for Statistics!"
+After loading your files, click "Submit Data for Statistics!".
-Check that your data have been properly submitted by checking that you have the "Data preparation was successful!"
+Check that your data have been properly submitted by checking that you have the "Data preparation was successful!".
-Now we should go to the "PERMANOVA & PCoA" section
+Now we should go to the "PERMANOVA & PCoA" section.
-Select Principal Coordinate Analysis
+Select Principal Coordinate Analysis.
@@ -447,7 +445,7 @@ Also, it is possible to observe that *Streptomyces* sp. H-KF8 metabolomic profil
-There are several statistics that you can do using FBMN STATS guide, you can check the preprint (here)[https://doi.org/10.26434/CHEMRXIV-2023-WWBT0].
+There are several statistics that you can do using FBMN STATS guide, you can check the preprint [here](https://doi.org/10.26434/CHEMRXIV-2023-WWBT0).
## Visualize the network using Cytoscape
@@ -467,7 +465,7 @@ Afterward, click on "Direct Cytoscape Preview/Download"
If your network is not Done, then we could use a previously computed network, that holds the same data that we used in this workshop
-(Cytoscape)[https://cytoscape.gnps2.org/process?task=568cc93ed2e84f20b2b94bd186b48ee8#{}]
+[Cytoscape](https://cytoscape.gnps2.org/process?task=568cc93ed2e84f20b2b94bd186b48ee8#{})
Click on "Download Cytoscape File", and save it in your computer
@@ -514,7 +512,7 @@ Select the pie chart again in "Image/Chart", and now select ISP2 and ISP2-ASW. T
We can observe that some nodes are detected mostly in ISP2. However, several angucycline-related compounds are detected almost exclusively in ISP2-ASW
-
+