Commit 4bea5d36 authored by Alessio Milanese's avatar Alessio Milanese
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Update README.md

parent ea31b059
...@@ -330,18 +330,18 @@ We use [mOTUs2](https://github.com/motu-tool/mOTUs_v2) to create taxonomic profi ...@@ -330,18 +330,18 @@ We use [mOTUs2](https://github.com/motu-tool/mOTUs_v2) to create taxonomic profi
motus profile -f filtered_1P -r filtered_2P -s filtered_1U,filtered_2U -o test_sample_relax.motus -t 8 -g 1 -l 40 motus profile -f filtered_1P -r filtered_2P -s filtered_1U,filtered_2U -o test_sample_relax.motus -t 8 -g 1 -l 40
cat test_sample_relax.motus | grep -v "0.0000000000" | grep -v "#" | wc -l cat test_sample_relax.motus | grep -v "0.0000000000" | grep -v "#" | wc -l
``` ```
We obtain 218 species (79 more species than the default parameters). While, with: We obtain 356 species (198 more species than the default parameters). While, with:
``` ```
motus profile -f filtered_1P -r filtered_2P -s filtered_1U,filtered_2U -o test_sample_stringent.motus -t 2 -g 6 -l 90 motus profile -f filtered_1P -r filtered_2P -s filtered_1U,filtered_2U -o test_sample_stringent.motus -t 8 -g 6 -l 90
cat test_sample_stringent.motus | grep -v "0.0000000000" | grep -v "#" | wc -l cat test_sample_stringent.motus | grep -v "0.0000000000" | grep -v "#" | wc -l
``` ```
we profile only 86 species (53 less than using the standard parameters). we profile only 91 species (67 less than using the standard parameters).
If you don't manage to run them (~4 mins each), you can download the profiles with: If you don't manage to run them (~4 mins each), you can download the profiles with:
``` ```
wget https://www.embl.de/download/zeller/metaG_course/motus_profiles/test_sample/test_sample.motus wget https://www.embl.de/download/zeller/metaG_course_2021/motus_profiles/test_sample/test_sample.motus
wget https://www.embl.de/download/zeller/metaG_course/motus_profiles/test_sample/test_sample_relax.motus wget https://www.embl.de/download/zeller/metaG_course_2021/motus_profiles/test_sample/test_sample_relax.motus
wget https://www.embl.de/download/zeller/metaG_course/motus_profiles/test_sample/test_sample_stringent.motus wget https://www.embl.de/download/zeller/metaG_course_2021/motus_profiles/test_sample/test_sample_stringent.motus
``` ```
</p> </p>
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