paper update

maxibor · May 3, 2019 · fe30a97 · fe30a97
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diff --git a/paper/paper.md b/paper/paper.md
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 # Summary
 
-SourcePredict is a Python package to classify and predict the source of metagenomics sample given a training set.  
+SourcePredict [(github.com/maxibor/sourcepredict)](https://github.com/maxibor/sourcepredict) is a Python package to classify and predict the source of metagenomics sample given a training set.  
 
 The DNA shotgun sequencing of human, animal, and environmental samples opened up new doors to explore the diversity of life in these different environments, a field known as metagenomics [@metagenomics].  
 One of the goals of metagenomics is to look at the composition of a sequencing sample with tools known as taxonomic classifiers.
@@ -75,4 +75,12 @@ with
 
 $$s_c = s_{c\ predicted}\times p_{unknown}$$
 
+## CLI
+
+The SourcePredict CLI is handled with ArgParse. A typical command to use SourcePredict is as simple as:  
+
+`sourcepredict path/to/test_otu_table.csv`
+
+The documentation of CLI is available at [sourcepredict.readthedocs.io](https://sourcepredict.readthedocs.io)
+
 # References
diff --git a/paper/paper.pdf b/paper/paper.pdf