From 393e2ad6320e4ecc632430fb2b4fbd750377822f Mon Sep 17 00:00:00 2001 From: "julie.orjuela" <julie.orjuela@ird.fr> Date: Fri, 8 Mar 2024 18:36:44 +0100 Subject: [PATCH] typo doc installation part into README --- README.md | 33 +++++++++++++++++---------------- 1 file changed, 17 insertions(+), 16 deletions(-) diff --git a/README.md b/README.md index 1fb08fe..f52166c 100644 --- a/README.md +++ b/README.md @@ -10,24 +10,9 @@ RNAja is a pipeline written in snakemake, allowing to analyse RNAseq data, perfo  -### 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. +----------------------- +### 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). + ----------------------- ## 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>. +----------------------- ## License Licenced under MIT https://opensource.org/license/mit/. -- GitLab