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Luca Denti authored Mar 2, 2017
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# SGAL

Splicing Graph ALigner
Splicing Graph ALigner (SGAL) performs an accurate approximate mapping of RNA-seq reads against a graph representing the transcripts of a gene.

Clone and compile with
This version is the one submitted to AlCoB 2017 (http://grammars.grlmc.com/AlCoB2017/).

### Prerequisites
* python3 (maybe also python is good enough but I didn't test it)
* python3 modules: biopython, bcbio-gff, editdistance

### Compiling
```bash
git clone --recursive https://github.com/AlgoLab/galig.git
cd galig
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./run genomic.fa annotation.gff rna_seqs.fa 3 5 gene out
```

This version has been tested on 64bit Linux system.

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