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updated readme to include new url to a databases archive
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kbessonov1984 committed Dec 11, 2023
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2 changes: 1 addition & 1 deletion README.md
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Expand Up @@ -15,7 +15,7 @@ reconstruction of plasmid sequences from WGS assemblies.


The MOB-suite depends on a series of databases which are too large to be hosted in git-hub. They can be downloaded or updated by running mob_init or if running any of the tools for the first time, the databases will download and initialize automatically if you do not specify an alternate database location. However, they are quite large so the first run will take a long time depending on your connection and speed of your computer.
Databases can be manually downloaded from [here](https://zenodo.org/record/3786915/files/data.tar.gz?download=1). <br>
Databases can be manually downloaded from [here](https://zenodo.org/records/10304948/files/data.tar.gz?download=1). <br>
Our new automatic chromosome depletion feature in MOB-recon can be based on any collection of closed chromosome sequences.

## Citations
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2 changes: 1 addition & 1 deletion mob_suite/tests/test_mobtyper_vs_biomarker_report.py
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Expand Up @@ -97,5 +97,5 @@ def test_mean_and_multireplicon_frame(mode = None):
assert len(SAMPLES_WITH_ISSUES_DF) == 0, "Test failed with {0:.1f}% success rate".format((NRANDOMSAMPLES2TEST-n_issues2solve)/n_records*100)


#test_mean_and_multireplicon_frame(mode="list of sample ids")
test_mean_and_multireplicon_frame(mode="list of sample ids")
test_mean_and_multireplicon_frame(mode="random sampling")

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