StringTie2是一种用于基因组上的转录组组装和定量的软件工具,其定量原理基于RNA-seq数据的读数。 在转录组组装过程中,StringTie2首先将原始的RNA-seq读取映射到参考基因组上,以确定每个转录本的外显子区域和边界。通过将转录本的外显子信息与基因组注释文件进行比较,可以对转录本进行分类,以确定它们是否属于已知的基因...
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【生信工具箱】转录组组装工具-StringTie2 等科易课堂 立即播放 打开App,流畅又高清100+个相关视频 更多444 -- 2:31 App 【鼠小弟】一步提取转录本 1058 -- 4:01 App 【鼠小弟】GO注释 1778 -- 7:19 App Fastq文件的序列数碱基数GC含量统计... 一键搞定! 2022 2 6:03 App 【鼠小弟】SSR引物...
StringTie2 tries to assemble reads. Put another way, FLAIR focuses on reconstructing full-length isoforms, while StringTie2 reconstructs isoforms based on potential splice sites identified from the reads. In this analysis, we found out that FLAIR might be better at identifying annotated ...
git clone https://github.com/mpertea/stringtie2 cd stringtie2 make release Note that simply runningmakewill produce an executable which is more suitable for debugging and runtime checking but which can be significantly slower than the optimized version which is obtained by usingmake release. ...
一、安装软件 1、HISAT2 将reads比对到基因组上 2、StringTie 将比对好的reads进行拼装并预计表达水平 3、SAM tools 课上已经用sudo a...
In order to build StringTie from this GitHub repository the following steps can be taken: git clone https://github.com/mpertea/stringtie2 cd stringtie2 make release Note that simply running make will produce an executable which is more suitable for debugging and runtime checking but which can...
样本定量软件stringtie 差异表达分析R语言包deseq2 package或ballgown package 以下代码以单个样本为例: 1. 测序结果Raw data的分析 #生成文件的md5值 md5sum *.gz > md5.txt #比对md5值 md5sum -c md5.txt #fastqc查看样本质量 fastqc -t 6 *gz -o result/ ...
id=${id/.sam/} samtools view -bS ${id}.sam -o /disk/zhanglu/SE8/bam/${id}.bam done -b 输出bam文件 -S 输入sam文件 samtools sort排序 #!/bin/bash #this is a sort ls *.bam | while read id do id=${id/.bam/} samtools sort ${id}.bam -T tmp -o ${id}.sort.bam ...
RNAseq有参分析学习tophat2+hista2+stringtie ⽐对并排序：hisat2 -x GRCh38.p12.genome.fa -p 20 -1 sample1_R1.fq.gz -2 sample1_R2.fq.gz -S sample1.sam === 当然⽐对也可以使⽤tophat:tophat2 -T -G gencode.v29.annotation.gtf --transcriptome-index gencode.v29.transcripts -o...