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ypriverol merged 1 commit into from
Oct 16, 2025
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add to README #68

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11 changes: 11 additions & 0 deletions README.md
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Expand Up @@ -84,6 +84,17 @@ Additional options:
- `--aspera_maximum_bandwidth` flag is used to specify the maximum bandwidth for the Aspera download. The default value is 100M.
- `--checksum_check` flag is used to check the checksum of the downloaded files. The default value is False.

## Downloading raw files from ProteomeXchange (PX)

You can download all raw files referenced by a ProteomeXchange dataset by passing only the accession:

```bash
$ pridepy download-px-raw-files -a PXD039236 -o /Users/yourname/Downloads/foldername/
```

- The tool resolves the ProteomeXchange XML and downloads via FTP when available, otherwise HTTP(S).
- Resume and skip-if-already-downloaded are supported by default.

## Download single file by name

Users instead of downloading an entire project files may be interested in downloading a single file if they know it by name. Here is how to download a single file by name.
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