{"repo":"nf-core/tumourevo","free":true,"listed":false,"github":"https://github.com/nf-core/tumourevo","clone":"git clone https://github.com/nf-core/tumourevo.git","description":"Analysis pipeline to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and mutational signature deconvolution)","language":"Nextflow","stars":22,"topics":["cancer-evolution","cancer-genomics","copy-number-variation","mutational-signatures","population-genetics","quality-control","subclonal-deconvolution","variant-annotation","nextflow","nf-core"],"license":"MIT","category":"workflow-automation","readme_excerpt":"Introduction nf-core/tumourevo is a bioinformatics pipeline to model tumour evolution from whole-genome sequencing (WGS) data. The pipeline performs state-of-the-art downstream analysis of variant and copy-number calls from tumour-normal matched sequencing assays, reconstructing the evolutionary processes leading to the observed tumour genome. This analysis can be done at the level of single samples, multiple samples from the same patient (multi-region/longitudinal assays), and of multiple patients from distinct cohorts. The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It comes with docker containers making installation trivial and results highly reproducible. The Nextflow DSL2 implementation of this pipeline uses one container per process which makes it easier to maintain and update software dependencies. Where possible, these processes have been submitted to and installed from nf-core/modules in order to make them available to all nf-core pipelines, and to everyone within the Nextflow community! Pipeline Summary The tumourevo pipeline supports variant annotation, driver annotation, quality control processes, subclonal deconvolution and signature deconvolution analysis through various tools. It can be used to analyse both single sample experiments and longitudinal/multi-region assays, in which multiple samples of the same patient are avaiable. As input, you must provide at least information ","default_branch":null,"files":null,"tree":[],"storefront":"/r/nf-core","claimed":false,"request_supported":{"post":"https://gitbuyer.com/r/nf-core/tumourevo/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."}