Getting Started (Drylab)

Servers

We have two servers that you can use for data analysis and software development. 1. High Performance Computing Cluster and 2. Lab server. You’ll need to log in VPN if you plan to access these servers off-campus.

1. High Performance Computing cluster (HPC)

• IP address to HPC: 172.16.75.132 (port 22 or 10002)
• Link to Westake HPC: https://hpc.westlake.edu.cn/
• Help document: https://hpc.westlake.edu.cn:8080/index.html

  Setting up an account on the HPC.

Running jobs on HPC.

This page provides detailed instructions on how to run jobs on HPC.

Help information

• Please ask the admin to be added to the Wechat group.

2. Lab Server

Lab server configuration

• CPU: 64 core;128 threads
• Memory: 512 G
• Disc Space: 100TB
• IP address: x.x.x.x

Shared directory on the server.

We have a shared directory on the server, which contains resources that can be used by all lab members. The location of the shared directory is /storage/zhangyanxiaoLab/share/. They include:

• Genome files in fasta format.
• Genome index for aligners such as BWA, bowtie2, rnaSTAR, etc.

Analysis Pipelines

We have built basic analysis pipelines with snakemake. They are easy to run and can produce very standard output for sequencing datasets. The location of the pipeline is currently in /storage/zhangyanxiaoLab/share/Pipelines. Currently we suppport analysis of:

• RNA-seq (paired-end or single-end)
• ChIP-seq (single-end)
• ATAC-seq (paired-end) (This can be applied to paired-end ChIP-seq as well. )
• Hi-C