rnaseq-engineering/README.md

Author: Jun Shang

Email: shangjunv@163.com

Last Updates: 29/06/2020

Requirements

• choppy
• Ali-Cloud

$ source activate choppy/open-choppy-env
$ choppy install junshang/rnaseq-engineering:tag
$ choppy apps

quick start

$ choppy samples junshang/rnaseq-engineering-latest > samples.csv
$ choppy batch junshang/rnaseq-engineering-latest samples.csv -p Your_project_name

sample_id	disk_size	read1	read2	pre_alignment_qc	qualimap_qc	trim_adapter
FDU_D5	200	oss://choppy-app-example-data/RNAseq/Downsampling_Quartet_RNAseqQC_12samples/Quartet_RNA_ILM_NovaSeq_RiboZero_FDU_D5_1_20190710_CleanData_R1_400k.gz	oss://choppy-app-example-data/RNAseq/Downsampling_Quartet_RNAseqQC_12samples/Quartet_RNA_ILM_NovaSeq_RiboZero_FDU_D5_1_20190710_CleanData_R2_400k.gz	false	true	true