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Update README.md
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hasindu2008 authored Dec 20, 2023
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Expand Up @@ -133,7 +133,7 @@ f5c eventalign -b [reads.sorted.bam] -g [ref.fa] -r [reads.fastq|fasta] --rna >
f5c eventalign -b [reads.sorted.bam] -g [ref.fa] -r [reads.fastq|fasta] --pore r10 > [events.tsv]
```

Visit the [man page](https://hasindu2008.github.io/f5c/docs/commands) for all the commands and options.
Visit the [man page](https://hasindu2008.github.io/f5c/docs/commands) for all the commands and options. See [here](https://hasindu2008.github.io/f5c/docs/output) for description of output formats.

### Example

Expand Down Expand Up @@ -166,6 +166,8 @@ f5c eventalign -b chr22_meth_example/reads.sorted.bam -g chr22_meth_example/huma

```

More examples can be found [here](https://hasindu2008.github.io/f5c/docs/example-usage).

## Acknowledgement
This reuses code and methods from [Nanopolish](https://github.com/jts/nanopolish).
The event detection code is from Oxford Nanopore's [Scrappie basecaller](https://github.com/nanoporetech/scrappie).
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