HiC数据分析介绍

1.HiC PRO–分析部分：
1.1. 安装HiC PRO依赖的软件。例如所使用的HiC-PRO3.1.0版本的依赖软件和版本如下：
序列比对软件：bowtie2；
序列处理软件：samtools；
环境管理软件：conda或docker二选一；
任务调度软件：TORQUE或SGE 或 SLURM三选一；
R4.0及以上；
python3.7及以上；
1.2. 下载并解压HiC-PRO3.1.0，按照以下步骤创建环境、配置和安装HiC-PRO。

19-01-15

Nicolas Servant

#############################

HiC-Pro Installation

#############################

All dependencies will be checked during installation, and installed if
possible. The installation process will generate a config-system.txt
file which defines all paths to HiC-Pro dependencies. Please, do not
edit this file !

Install Dependencies

Dependencies are checked during installation. A couple of tools such
as bowtie2 and samtools (>=1.9) can be automatically installed if
not detected. Others have to be installed before starting the
installation :

• R (http://www.r-project.org/) with the following packages
  — ggplot2 (>2.2.1)
  — RColorBrewer
  — grid
• Python (>3.7) libraries :
  — bx-python (>=0.8.8) - https://pypi.python.org/pypi/bx-python
  — numpy (>=1.18.1) - http://www.scipy.org/scipylib/download.html
  — scipy (>=1.4.1) - http://www.scipy.org/scipylib/download.html
  — pysam (>=0.15.4) - https://github.com/pysam-developers/pysam
  — argparse
<