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collect sorted bam output to emit the result #25

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Jan 28, 2025
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collect sorted bam output to emit the result #25

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6 changes: 6 additions & 0 deletions README.md
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Expand Up @@ -24,6 +24,7 @@ AliNe is a pipeline written in Nextflow that aims to efficiently align reads aga
* [Output](#output)
* [Structure](#structure)
* [Statistics](#statistics)
* [Integrating AliNe in another nf pipeline](#integrating-aline-in-another-nf-pipeline)
* [Contributing](#contributing)

## Foreword
Expand Down Expand Up @@ -494,6 +495,11 @@ You will get a table similar to this one:
15 yeast_R1_seqkit_trim_subread 69.21661409043114 44 0.007607999999999999
```

## Integrating AliNe in another nf pipeline

In nextflow it is possible to call external workflow like AliNe from another workflow.
This require to write a dedicated process that will call AliNe and get back the results.
A complete guide how to do so is axailable [here](https://github.com/mahesh-panchal/nf-cascade?tab=readme-ov-file)

## Contributing

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