update student-guide config

Author: KatherineCox

student-guide/_bookdown.yml

@@ -1,13 +1,14 @@
-book_filename: "Student_Guide"
 chapter_name: "Chapter "
-repo: https://github.com/jhudsl/AnVIL_Template/
+repo: https://github.com/jhudsl/AnVIL_Phylogenetic-Techniques/
 rmd_files: ["index.Rmd",
-            "09-student_guide.Rmd",
+            "student-guide.Rmd",
+            "About.Rmd",
             "References.Rmd"]
 new_session: yes
 bibliography: [book.bib]
 delete_merged_file: true
 language:
   ui:
     chapter_name: "Chapter"
-output_dir: "student-guide"
+book_filename: "Student_Guide" # Do not change
+output_dir: "student-guide/docs" # Do not change

student-guide/_output.yml

@@ -0,0 +1,2 @@
+bookdown::word_document2:
+  toc: true