得到FPKM、TPM、Readscounts cd/workspace/rnaseq/ref-only-expression wget https://raw.githubusercontent.com/griffithlab/rnaseq_tutorial/master/scripts/stringtie_expression_matrix.pl chmod+x stringtie_expression_matrix.pl./stringtie_expression_matrix.pl--expression_metric=TPM--result_dirs='RNAseq_Norm_L...
We describe the RNA-seq IMmune Analysis (RIMA) pipeline integrating many of these tools to streamline RNA-seq analysis. We also developed a comprehensive and user-friendly guide in the form of a with text and video demos to assist users in analyzing bulk RNA-seq data for immune ...
We describe the RNA-seq IMmune Analysis (RIMA) pipeline integrating many of these tools to streamline RNA-seq analysis. We also developed a comprehensive and user-friendly guide in the form of a GitBook with text and video demos to assist users in analyzing bulk RNA-seq data for immune ...
1. nf-core里有多少种流程(pipeline)? 截止到目前,一共有32种流程可供选择。此次示范,我们选择的是最常用的rnaseq流程。 所涵盖的部分流程 2. 如何下载Nextflow和nf-core? 此篇教学文档,主要针对于需要在服务器上(特别是计算节点)运行nf-core/rnaseq流程的人,也就是官方流程中所述的Running Offline(离线运行)...
workflowrna-seqpipelinenextflowrnanf-core UpdatedJan 28, 2025 Nextflow theislab/single-cell-best-practices Star827 Code Issues Pull requests Discussions https://www.sc-best-practices.org tutorialrna-seqbooksingle-cell UpdatedJan 28, 2025 Jupyter Notebook ...
This tutorial will use DESeq2 to normalize and perform the statistical analysis between sample groups. Be sure to know the full location of the final_counts.txt file generate from featureCounts. Import gene counts table # - skip first row (general command info) # - make row names the gene...
rna-seq genomics omics rna-seq-analysis genomics-visualization Updated Feb 28, 2025 R MaayanLab / Zika-RNAseq-Pipeline Star 102 Code Issues Pull requests An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study rna-seq pipeline not...
mRNA-seq转录组二代测序从raw reads到表达矩阵:上中游分析pipeline miRNA-seq小RNA高通量测序pipeline:从raw reads,鉴定已知miRNA-预测新miRNA,到表达矩阵【一】 miRNA-seq小RNA高通量测序pipeline:从raw reads,鉴定已知miRNA-预测新miRNA,到表达矩阵【二】 ...
First, import the countdata and metadata directly from the web. Set up the DESeqDataSet, run the DESeq2 pipeline. # Note importing BioC pkgs after dplyr requires explicitly using dplyr::select() library(dplyr) library(DESeq2) # Which data do you want to use? Let...
Webinar Tutorial: How to Easily Perform Effective scRNA-Seq Cell-Type Predictions February 12th, 2025 Single-Cell RNA-Seq Data Analysis: A Practical Introduction (March 17-19, 2025 in Berlin, Germany) February 12th, 2025 Transforming Pipeline Outputs into Biological Insights ...