这里除了有STAR-counts,还有TPM,FPKM和FPKM_UQ。这几个数据的具体计算方法可以参考TCGA官方文档https://docs.gdc.cancer.gov/Data/Bioinformatics_Pipelines/Expression_mRNA_Pipeline/ STAR-counts的计算比较直截了当,就是有几条reads比对到相应的基因上面,counts就是几。 TPM,FPKM和FPKM_UQ的定义如下。 FPKMThefragmen...
这里除了有STAR-counts,还有TPM,FPKM和FPKM_UQ。这几个数据的具体计算方法可以参考TCGA官方文档https://docs.gdc.cancer.gov/Data/Bioinformatics_Pipelines/Expression_mRNA_Pipeline/ STAR-counts的计算比较直截了当,就是有几条reads比对到相应的基因上面,counts就是几。 TPM,FPKM和FPKM_UQ的定义如下。 FPKMThefragmen...
题目:The nf-core framework for community-curated bioinformatics pipelines 杂志:Nature Biotechnology 时间:Published: 13 February 2020 链接:https://www.nature.com/articles/s41587-020-0439-x 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rnase...
https://docs.gdc.cancer.gov/Data/Bioinformatics_Pipelines/Expression_mRNA_Pipeline/ STAR-counts的计算比较直截了当,就是有几条reads比对到相应的基因上面,counts就是几。 TPM,FPKM和FPKM_UQ的定义如下。 代码语言:javascript 复制 FPKMThe fragments per kilobaseoftranscript per million mappedreads(FPKM)calculati...
limited. Some commercial companies provide software tools, such as 10× Genomics and Fluidigm, but this area remains in its infancy, and gold-standard tools have yet to be developed. In the sections below, we will discuss current bioinformatics tools available for the analysis of scRNA-seq data...
RNAseq 简介 RNA测序(RNA-seq)在过去十年里逐渐成为全转录组水平分析表达和研究mRNA差异剪接必不可少的工具,应用于如单细胞基因表达、RNA翻译(translatome),RNA结构组(structurome), RNA-RNA/RNA-Protein的相互作用、空间转录组学(spatialomics)等多种RNA层面的研究(R. Stark, Grzelak, and Hadfield 2019)。
BioinformaticsAddo-Quaye C, Miller W, Axtell MJ: CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets. Bioinformatics 2009, 25 (1) : 130–131.Addo-Quaye C, Miller W, Axtell MJ: CleaveLand: a pipeline... C Addo-Quaye,W Miller,MJ Axtell - 《Bioinformatics》 ...
nf-core/rnaseqis a bioinformatics pipeline that can be used to analyse RNA sequencing data obtained from organisms with a reference genome and annotation. It takes a samplesheet and FASTQ files as input, performs quality control (QC), trimming and (pseudo-)alignment, and produces a gene expres...
bioinformatics rna-seq gui-application bioinformatics-pipeline rnaseq transcriptomics rna-seq-analysis bioinformatics-analysis smallrna rna-seq-pipeline bioinformatics-tool smallrna-seq Updated Oct 3, 2024 Python nextflow-io / rnaseq-nf Star 71 Code Issues Pull requests A proof of concept of RNA...
近日,福建农林大学海峡联合研究院林学中心顾连峰课题组在Genomics, Proteomics & Bioinformatics发表题为题为Multi-omics of circular RNAs and their responses to hormones in moso bamboo (Phyllostachys edulis)的研究论文。以毛竹为研究材料,通过RNase R消化去除线性RNA富集环状RNA方法识别了激素诱导的环状RNA,并且系统探...