nextflow run nf-core/rnaseq \ --input samplesheet.csv \ --genome GRCh37 \ -profile <docker/singularity/podman/conda/institute> 真正可运行的脚本,需要设置以下多种参数 # 首先我们切换到输出目录 cd /public/home/rnaseq # 这个 alias 命令很重要,因为官方的 pipeline 里找不到 hisat2_extract_splice...
These tasks are includes in the script rnaseq-flow.nf which defines the workflow logic to be executed. Finally the sub-workflow is include in the script script8.nf that's used as entry point for the sake of this tutorial. Run this example with the command: nextflow run script8.nf Dock...
container.SingularityCache - Singularity cache directory has not been defined -- Remote image will be stored in the path: /mnt/c/Users/mkozubov/Desktop/nextflow_tutorial/rnaseq/work/singularity -- Use env variable NXF_SINGULARITY_CACHEDIR to specify a different location Sep-21 16:00:52.300 [A...
我这里使用 Nextflow 作为流程搭建工具，它有着很多强大的功能：最近在做GEO数据挖掘的文章复现，文章标题...
nf-core / rnaseq Star 1k Code Issues Pull requests RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control. workflow rna-seq pipeline nextflow rna nf-core Updated Mar 26, 2025 Nextflow nextflow-io / awesome-nextflow Star...
nextflow run tutorial.nf Process process sayHello{""" echo 'Hello world!' > file """} 使用nf-core Pipelines » nf-core nextflow run nf-core/rnaseq 1人点赞 Linux 更多精彩内容,就在简书APP "小礼物走一走,来简书关注我" 赞赏支持还没有人赞赏,支持一下 ...
nextflow-io/rnaseq-nf - A basic pipeline for quantification of RNA-seq data using Salmon. nextflow-io/rnatoy - A basic RNA-seq pipeline nextflow-io/elixir-workshop-21 - A basic pipeline with QC and alignmentFeatured pipelinesAndersenLab/cegwas2-nf - GWA mapping with C. elegans. alesssia...
To save the result in the DNAnexus project storage, add to the args attribute in the examples/simple-rnaseq.json file, the option --outdir dx://<YOUR PROJECT ID>:/some/output/dir, replacing the placeholder <YOUR PROJECT ID> with the project id that can be found using this oneliner:...
The following GitHub repository hosts a complete version of the workflow introduced in this tutorial: https://github.com/nextflow-io/rnaseq-nf You can run it by specifying the project name as shown below: ./nextflow run nextflow-io/rnaseq-nf -with-docker It automatically downloads it and ...
master data misc .gitignore LICENSE README.md env.yml nextflow.config rnaseq-flow.nf rnaseq-tasks.nf script1.nf script2.nf script3.nf script4.nf script5.nf script6.nf script7.nf script8.nfBreadcrumbs nextflow-tutorial / .gitignore Latest...