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update readme
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oschwengers committed Aug 2, 2019
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Expand Up @@ -99,10 +99,23 @@ $ git clone git@github.com:oschwengers/platon.git
$ wget https://zenodo.org/record/3349652/files/db.tar.gz
$ tar -xzf db.tar.gz
$ rm db.tar.gz
$ mv db $PLATON_HOME
$ mv db/ platon
$ platon/bin/platon genome.fasta
```

### Conda
1. install Platon via Conda
2. download & extract the database

Example:
```
$ conda install -c conda-forge -c bioconda -c defaults platon
$ wget https://zenodo.org/record/3349652/files/db.tar.gz
$ tar -xzf db.tar.gz
$ rm db.tar.gz
$ platon --db ./db genome.fasta
```

### Pip
1. install Platon per pip
2. download and extract the database
Expand Down Expand Up @@ -166,8 +179,8 @@ $ platon -db ~/db --output results/ --verbose --threads 8 genome.fasta
## Database
Platon depends on a custom database based on MPS, RDS, RefSeq Plasmid database,
PlasmidFinder db as well as custom HMM models. This database based on
RefSeq release 90 can be downloaded here:
(zipped 1.8 Gb, unzipped 2.5 Gb)
RefSeq release 95 can be downloaded here:
(zipped 1.8 Gb, unzipped 2.6 Gb)
- [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.3349652.svg)](https://doi.org/10.5281/zenodo.3349652)
- [https://zenodo.org/record/3349652/files/db.tar.gz](https://zenodo.org/record/3349652/files/db.tar.gz)

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