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fix install instructions
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we do not need the nightly toolchain any more.
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gdv committed Nov 30, 2023
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Expand Up @@ -6,17 +6,17 @@ Install [`rust`](https://doc.rust-lang.org/cargo/getting-started/installation.ht
```
git clone https://github.com/AlgoLab/RecGraph.git
cd RecGraph
cargo +nightly build --release
cargo build --release
```

## Usage
RecGraph requires as input a variation graph in `.gfa` format and a set of sequences (reads) in `.fasta` format and computes the alignment in `.gaf` format. To run RecGraph, run:
```
cargo +nightly run --release <reads.fa> <graph.gfa> > <alignments.gaf>
cargo run --release <reads.fa> <graph.gfa> > <alignments.gaf>
```
#### Example
```
cargo +nightly run --release -- -m 9 example/reads.fa example/graph.gfa > align.gaf
cargo run --release -- -m 9 example/reads.fa example/graph.gfa > align.gaf
```

### Alignment modes
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