... | ... | @@ -1051,8 +1051,8 @@ make test && make install |
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##### PLASMIDS #####
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- LDN is running PathoFact on the ONT samples, so obtained the plasmid data through the ```MGE/plasmid/$i_plasmids_selected.tsv``` file generated in PathoFact
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- checking the number of plasmids in the assemblies
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```
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# checking the number of plasmids in the assemblies
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# grep -hnr "plasmid" $i_plasflow_prediction_final.tsv > $i_plasmids_selected.tsv
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for file in /scratch/users/ldenies/ONT/PathoFact/PathoFact_results/MGE/plasmid/*final.tsv
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