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Commit 393e2ad6 authored by julie.orjuela_ird.fr's avatar julie.orjuela_ird.fr
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typo doc installation part into README

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......@@ -10,24 +10,9 @@ RNAja is a pipeline written in snakemake, allowing to analyse RNAseq data, perfo
![](docs/source/_images/RNAja.png)
### Authors
* Aurore Comte (IRD), Christine Tranchant (IRD), Julie Orjuela (IRD)
Some parts of RNAja code and documentation were inspired or came from the pipelines below.
- Culebront (Julie Orjuela *et al.*) https://github.com/SouthGreenPlatform/culebrONT
- sRNAmake (Sebastien Cunnac *et al.*) https://github.com/Aucomte/sRNAmake
- BulkRNA (Camille Cohen) https://github.com/CamilleCohen/ProjetTuteur-_BulkRNA
RNAja uses SnakEcdysis package https://snakecdysis.readthedocs.io/en/latest/package.html to perform installation and execution in local and cluster mode developed by Sébastien Ravel (CIRAD).
## 1. Install dependencies and clone RNAja
Check dependencies for iKISS : Python >= 3.10.12 and Snakemake >= 7.32.4
Check dependencies for RNAja : Python >= 3.10.12 and Snakemake >= 7.32.4
Here, you can install RNAja from the gitlab source code such as :
......@@ -109,6 +94,21 @@ If singularity was selected in installation of RNAja, it could be needed to give
**Important Note** : In i-Trop cluster, run RNAja using ONLY a node, data has to be in "/scratch" of chosen node. Use `nodelist : nodeX` parameter inside of `cluster_config.yaml`̀ file.
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### Authors
* Aurore Comte (IRD), Christine Tranchant (IRD), Julie Orjuela (IRD)
Some parts of RNAja code and documentation were inspired or came from the pipelines below.
- Culebront (Julie Orjuela *et al.*) https://github.com/SouthGreenPlatform/culebrONT
- sRNAmake (Sebastien Cunnac *et al.*) https://github.com/Aucomte/sRNAmake
- BulkRNA (Camille Cohen) https://github.com/CamilleCohen/ProjetTuteur-_BulkRNA
RNAja uses SnakEcdysis package https://snakecdysis.readthedocs.io/en/latest/package.html to perform installation and execution in local and cluster mode developed by Sébastien Ravel (CIRAD).
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## Acknowledgements
......@@ -118,6 +118,7 @@ The authors acknowledge the IRD i-Trop HPC <https://bioinfo.ird.fr/> (South Gree
Thanks to Alexis Dereeper for his help and the development of diffexDB <https://bioinfo-web.mpl.ird.fr/cgi-bin2/microarray/public/diffexdb.cgi>.
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## License
Licenced under MIT https://opensource.org/license/mit/.
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