{"repo":"montilab/pipeliner","free":true,"listed":false,"github":"https://github.com/montilab/pipeliner","clone":"git clone https://github.com/montilab/pipeliner.git","description":"A flexible Nextflow-based framework for the definition of sequencing data processing pipelines","language":"Nextflow","stars":44,"topics":["nextflow","workflow","bioinformatics","rna-seq","computational-biology"],"license":"GPL-3.0","category":"workflow-automation","readme_excerpt":"Pipeliner A flexible Nextflow-based framework for the definition of sequencing data processing pipelines Features Modular directory structure: It is designed to generate automated result directory based on the names of the samples and tools used to process them. Platform independent: It is bundled with an anaconda repository which contains pre-compiled tools as well as pre-built environments that can be used directly. Modular architecture: It allows the expert users to customize, modify processes, or add additional tools based on their needs. Automated job parallelization, job recovery, and reproducibility. Quickstart For more information, please refer to the full documentation Clone Repository Install Dependencies Activate Conda Environment Update Local Paths Download Nextflow Executable Locally Run Example Data Expected Output Please refer to reports for examples Cite Federico A, Karagiannis T, Karri K, Kishore D, Koga Y, Campbell J, Monti S (2019) Pipeliner: A Nextflow-based framework for the definition of sequencing data processing pipelines. Frontiers in Genetics . https://doi.org/10.3389/fgene.2019.00614.","default_branch":null,"files":null,"tree":[],"storefront":"/r/montilab","claimed":false,"request_supported":{"post":"https://gitbuyer.com/r/montilab/pipeliner/request-supported","requests":0},"note":"indexed from public GitHub; nothing is for sale on this page. Clone it from GitHub. Paid listings live at /search."}