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Fixed typo in usage example
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Harrison Deng 2025-03-03 14:47:21 +00:00
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README.md
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@ -37,7 +37,7 @@ Let's say you have a fasta called `seq.fasta` which contains several sequences.
1. Running `autoBIGS info -l` to list all available `seqdef` databases and find the database associated with Bordetella (you should see one called `pubmlst_bordetella_seqdef`).
2. Then, run `autoBIGS info -lscheme pubmlst_bordetella_seqdef` to get the available typing schemes and their associated IDs. In this example, let's assume we want a normal MLST scheme. In this case, we would pay attention to the number next to `MLST` (it should be `3`). Alternatively, we can look at the name of the schemes and use those too (in this case, it is simply `MLST`).
2. Then, run `autoBIGS info -lschemes pubmlst_bordetella_seqdef` to get the available typing schemes and their associated IDs. In this example, let's assume we want a normal MLST scheme. In this case, we would pay attention to the number next to `MLST` (it should be `3`). Alternatively, we can look at the name of the schemes and use those too (in this case, it is simply `MLST`).
3. Then, run `autoBIGS st -h` and familiarize yourself with the parameters needed for sequence typing.