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Update 5_assembly_cleanup_annotation.md
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ldutoit authored Nov 23, 2023
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Expand Up @@ -37,7 +37,7 @@ With that understanding, we are ready to test it out for ourselves...
curl -LO https://github.com/ncbi/fcs/raw/main/examples/fcsgx_test.fa.gz
```

This tool is a python script that calls a Docker/Singularity container. This was done because contamination screens notoriously require a ton of dependencies. So having a Docker container makes things easier on the user. The docker container requires that a database of contaminants are downloaded. We have already downloaded the test database here: `/nesi/nobackup/nesi02659/LRA/resources/fcs/test-only`. The container has already been downloaded as well, we just need to load the singularity module and let FCS know where the container is:
This tool is a python script that calls a Docker/Singularity container. This was done because contamination screens notoriously require a ton of dependencies. So having a Docker container makes things easier on the user. The docker container requires that a database of contaminants are downloaded. We have already downloaded the test database here: test-only`. The container has already been downloaded as well, we just need to load the singularity module and let FCS know where the container is:

!!! terminal "code"

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