Published November 19, 2023
| Version v1.0.0
Software
Open
Genome assembly pipeline for Chinese Quartet project
Description
AssmPipe
Pipeline for genome assembly
Quick start
1. change the snakemake file according to you environment.
2. run with snakemake
nohup snakemake -s pipeline.smk -j 10 -k --ri >sublog 2>&1 & nohup snakemake -s pipeline.smk -j 10 -k --ri --cluster "qsub -l nodes=1:ppn=20 -l walltime=999:00:00" >sublog 2>&1 &
Support tools
- hifiasm
- hicanu
- flye
- shasta
- canu
- ...
Contribution
If you want to apply other tools to this pipeline, we encourage you to pull a request or email us.
Contact
- Peng Jia at Xi'an Jiaotong University (pengjia@stu.xjtu.edu.cn)
Files
PengJia6/AssmPipe-v1.0.0.zip
Files
(17.6 kB)
Name | Size | Download all |
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md5:17d8fb231c84ec9c1e8f5020483488a3
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17.6 kB | Preview Download |
Additional details
Related works
- Is supplement to
- Software: https://github.com/PengJia6/AssmPipe/tree/v1.0.0 (URL)