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update README.md
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yaseminbridges committed Jan 5, 2024
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Expand Up @@ -32,6 +32,18 @@ You can also limit the number of disease phenopackets converted/created:
p2p convert --phenotype-annotation /path/to/phenotype.hpoa --output-dir /path/to/output-dir --num-diseases 100
```

Or limit for a specific OMIM disease:

```shell
p2p create --phenotype-annotation /path/to/phenotype.hpoa --output-dir /path/to/output-dir --omim-id OMIM:619340
```

Or limit for a list of OMIM IDs specified in a text file, with each ID separated by a new line:

```shell
p2p create --phenotype-annotation /path/to/phenotype.hpoa --output-dir /path/to/output-dir --omim-id-list /path/to/list.txt
```

To add known gene-to-phenotype relationships to phenopackets:

```shell
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