CHIP-seq流程学习笔记（9）-使用IDR 软件对生物学重复样本间的差异peak进行提取

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最新推荐文章于 2024-05-15 22:24:33 发布

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分类专栏： ChIP-seq学习笔记

本文链接：https://blog.csdn.net/xiaomotong123/article/details/116535067

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这篇博客介绍了如何利用IDR软件处理CHIP-seq实验的生物学重复样本，包括Conda安装IDR、理解参数含义以及在Linux服务器上鉴定peak。实验目标是筛选出重复样本间的差异peak。

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参考文章：

使用IDR软件处理生物学重复样本的peak calling

Irreproducible Discovery Rate (IDR)

1. 使用Conda安装IDR软件

(base) zexing@DNA:~/projects/zhaoyingying/ChIP_seq/2021_05_01/scripts_log$ conda install idr
Collecting package metadata (current_repodata.json): done
Solving environment: done
## Package Plan ##
  environment location: /f/xudonglab/zexing/miniconda3
  added / updated specs:
    - idr
The following packages will be downloaded:
    package                    |            build
    ---------------------------|-----------------
    conda-4.10.1               |   py37h89c1867_0         3.1 MB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
    idr-2.0.4.2                |   py37h77a2a36_5          77 KB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda
    matplotlib-3.2.2           |                1           6 KB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
    matplotlib-base-3.2.2      |   py37h1d35a4c_1         7.0 MB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
    openssl-1.1.1k             |       h7f98852_0         2.1 MB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
    ------------------------------------------------------------
                                           Total:        12.3 MB
The following NEW packages will be INSTALLED:
  idr                anaconda/cloud/bioconda/linux-64::idr-2.0.4.2-py37h77a2a36_5
  matplotlib         anaconda/cloud/conda-forge/linux-64::matplotlib-3.2.2-1
The following packages will be UPDATED:
  conda                                4.9.2-py37h89c1867_0 --> 4.10.1-py37h89c1867_0
  openssl                                 1.1.1i-h7f98852_0 --> 1.1.1k-h7f98852_0
The following packages will be DOWNGRADED:
  matplotlib-base                      3.3.3-py37h4f6019d_0 --> 3.2.2-py37h1d35a4c_1

Proceed ([y]/n)? y

Downloading and Extracting Packages
conda-4.10.1         | 3.1 MB    | ####################################################################################################### | 100%
matplotlib-base-3.2.