图 CUT&Tag用于组蛋白修饰分析和RNAPII（Kaya-Okur et al., 2019）。参考文献 Ye Zheng, Kami Ahmad, Steven Henikoff. CUT&Tag Data Processing and Analysis Tutorial. Protocol .io, 2020.Kaya-Okur HS, Wu SJ, Codomo CA, et al. CUT&Tag for efficient epigenomic profiling of small samples and singl...
官方教程地址:CUT&Tag Data Processing and Analysis Tutorial (yezhengstat.github.io) 用到的软件之类的大家自行下载哈。用conda装就行 我看了官方的教程,其中是有部分冗余,且有细微的错误,会报错。 这里简单的将我运行后没问题的代码贴过来。 其实主要的流程包括 1.质控 2.比对到基因组3.callpeak。中间用R...
Ye Zheng, Kami Ahmad, Steven Henikoff. CUT&Tag Data Processing and Analysis Tutorial. Protocol .io, 2020. Kaya-Okur HS, Wu SJ, Codomo CA, et al. CUT&Tag for efficient epigenomic profiling of small samples and single cells. Nat Commun. 2019;10(1):1930....
指定geneset的peak可视化 1 2 3 4 5 6 7 8 9 cd/mnt/storage/home/da528/ATAC_Analysis/cut_run/cut_run1/cutoff25/qc/bw out_dir=/mnt/storage/home/da528/ATAC_Analysis/cut_run/zhixin_analysis/deeptools name1=Absc peak1=/home/da528/ATAC_Analysis/cut_run/zhixin_analysis/DiffBind/sox9_paper...
A bash/R script adapted from the CUT&Tag processing and analysis tutorial is included in this repository to generate a quality report. The information presented includes the % of mapped reads, the % of mitochondrial reads, the % of E.coli reads and the % of duplicate reads. In general, ...
CUT&Tag Data Processing and Analysis Tutorial (protocols.io) 新的ngs流程该如何学习(以CUT&Tag 数据处理为例子) #cuttag Cut &Run 和 Cut & Tag 都是Steven Henikoff实验室开发的方法。 先从linux command入手,来跑一遍CUT RUN的流程,用的数据是实验室测序的数据。 conda下创建一个小环境 cuttag 代码语言...
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Cut&Tag实验流程 image.png 参考网站:解锁新技术,玩转表观研究-CUT&Tag (baidu.com) Cut&Tag分析流程: 官网:CUT&Tag Data Processing and Analysis Tutorial (yezhengstat.github.io) 关于比对使用--end-to-end 和local的一些解答:What does "25x25 PE Illumina sequencing" means and how does the reads le...
GPU:The percentage of Graphics Processing Unit’s (GPU) available resources that a process has consumed. GPU Engine:The process’s chosen GPU hardware and engine. This will reveal which GPU a procedure is utilizing if your computer has more than one GPU. To find out which number GPU 0 or...
Single-cell CUT&Tag analysis of chromatin modifications in differentiation and tumor progression #单细胞CUT&Tag技术文章 重复分析主要参考: https://yezhengstat.github.io/CUTTag_tutorial/ 流程中出现K4me3写为K4m3的错误,请注意 流程如下: pipeline ...