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add build instructions to README
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pontushojer committed Jun 16, 2023
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- [Running NAIBR](#Running-NAIBR)
- [Converting BEDPE to VCF](#Converting-BEDPE-to-VCF)
- [Benchmarks](#Benchmarks)
- [Development](#Development)
- [Citing](#Citing)

## Overview
Expand Down Expand Up @@ -139,6 +140,33 @@ Sample | Precision | Recall | F1 score | TP-base | TP-call | FP | FN

This fork, i.e. `main_cbbdf01_pass`, had much higher F1 score of 87.0% than the master branch at 25.8%. Also the `main_cbbdf01_all` seems to include a lot of TP calls that are filtered out by NAIBR, possibly filtering should be re-optimized.

## Development

### Create a new release

Tag the commit with the new version number, e.g. `v0.1.0`:

```
git tag <version>
```

Push tag

```
git push origin <version>
```

Build package

```
python3 -m pip install --upgrade build
python3 -m build
```

This generates a file `dist/NAIBR-<version>.tar.gz`.

Create a release on GitHub and upload the `dist/NAIBR-<version>.tar.gz` for the new version.

## Citing
Elyanow, Rebecca, Hsin-Ta Wu, and Benjamin J. Raphael. *Identifying
structural variants using linked-read sequencing data.* Bioinformatics (2017).
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year={2017}
}
```


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