# 下载流程git clone https://github.com/nf-core/rnaseq.git 下载本地化镜像,并将设置镜像地址 # 在相同目录下,需在联网环境下 nf-core download --outdirsingularity/ --parallel-downloads 10 --container-system singularity rnaseq # 会跳出几个选项,选择默认的就行 # 设置镜像地址 export NXF_SINGULARI...
[- ] process > output_documentation - 第一次使用一个流程,会调用nf-core/rnaseq/environment.yml 文件配置一个独立的conda环境(nf-core-rnaseq),安装一系列软件,如下: # You can use this file to create a conda environment for this pipeline: # conda env create -f environment.yml name: nf-core-...
nf-core:基于Nextflow开发的生信流程 之前文章介绍了Nextflow:《Nextflow-完整pipeline编写执行利器》,nf-core就是基于Nextflow开发的一个生物信息平台,包含如:scRNA-seq、RNA-seq、Hi-C、ATAC-seq、ChIP-seq等流程,每种流程都配有相应的文档和示例: 目前截止2020年11月,共有发布版本26个,开发中的流程15个,归档4个...
its entirely possible to skip this step by using the same (or a different one for that matter) BED file as is hosted on iGenomes. The RAM issue is a bit more concerning and the resource requirements will need to be updated. I have increased the resources in thenf-core/chipseqpipeline ...
To whom it may concern the following is a suggestion that I brought up on the slack and we thought would be worth it to add to the repo. In the current iteration of the pipeline there does not yet exist a step which merges bam files from...
By analyzing a chromatin immunoprecipitation followed by deep sequencing (ChIP-Seq) data that characterizing the global binding sites (BSs) of NF-kappa B RelA in the TNF alpha-stimulated HeLa cells, we found that four genes that encode core enzymes of the tricarboxylic acid (TCA) cycle, ...
By analyzing a chromatin immunoprecipitation followed by deep sequencing (ChIP-Seq) data that characterizing the global binding sites (BSs) of NF-κB RelA in the TNFα-stimulated HeLa cells, we found that four genes that encode core enzymes of the tricarboxylic acid (TCA) cycle, including IDH1...
生信分析工具五花八门,不同的工具得到分析结果常大相径庭。nf-core为此而生,解决分析流程的标准化、可移植、可重复的问题。汇聚了39个高质量的分析流程,主要的是基因组学,还有部分蛋白质组学分析流程。 网站https://nf-co.re 代码https://github.com/nf-core ...
学徒第4月,ChIP-seq数据分析实战训练:文档链接:https://mubu.com/doc/11taEb9ZYg密码:wk29 也为每个组学视频课程,设置了练习题,不知道大家是否有学习呢? 学徒考核-计算wes数据的全部外显子的平均测序深度 肿瘤外显子视频课程小作业 ChIPseq视频课程小作业 ...
第一次使用一个流程,会调用nf-core/rnaseq/environment.yml 文件配置一个独立的conda环境(nf-core-rnaseq),安装一系列软件,如下: 代码语言:javascript 代码运行次数:0 运行 AI代码解释 # You can usethisfile to create a conda environmentforthispipeline:# conda env create-f environment.ymlname:nf-core-rn...