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lines changed Original file line number Diff line number Diff line change @@ -46,7 +46,7 @@ The documentation for the project is built automatically by
4646[ readthedocs] ( www.readthedocs.org ) upon every commit. The HTML documentation is
4747available at https://stag-mwc.readthedocs.org . Feel free to improve the
4848documentation, but avoid committing anything but source documents to the repo.
49- The documentation is written using Sphix , so all documentation sources are
49+ The documentation is written using Sphinx , so all documentation sources are
5050written in [ reStructuredText] ( http://www.sphinx-doc.org/en/master/usage/restructuredtext/basics.html ) .
5151
5252### envs
@@ -61,7 +61,8 @@ conda-forge, etc.).
6161All workflow rules are organized in the ` rules ` folder. It contains a directory
6262hierarchy organized by overall function in the workflow, e.g., the subfolder
6363` taxonomic_profiling ` contains rules for all taxonomic profiling tools. It is
64- recommended to keep one file per logical unit or tool.
64+ recommended to keep one file per logical unit or tool, so they can be easily
65+ toggled by a simple if-statement in the main Snakefile.
6566
6667The overall concept of StaG-mwc is that analyses are performed on trimmed/cleaned
6768reads that have had human sequences removed, so rules should generally start
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