jingchengyang
/
rna-seq-tophat
關注 1
收藏 0
複製 0
程式碼 問題 0 合併請求 0 版本發佈 0 Wiki 活動
RNA-seq pipeline with tophat2 + cufflinks + trimmomatic + fastqc
You can not select more than 25 topics Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
1 提交
1 分支
目錄樹: 5dca2f0a3d
分支列表 標籤
${ item.name }
建立分支 ${ searchTerm }
從 '5dca2f0a3d'
${ noResults }
rna-seq-tophat/README.md

README.md 864B
原始文件 Normal View 歷史記錄

First commit.
5 年之前
​
​
​
​
​
​
​
​
​
​
​
​
​
​
​
​
​
 123456789101112131415161718 
  1. ## Arguments

  2. 

  3. ```text

  4. # User Defined

  5. read1: oss://pgx-storage-results/demo/Quartet-RNA-D5-3-test.clipped_R1.fastq.gz

  6. read2: oss://pgx-storage-results/demo/Quartet-RNA-D5-3-test.clipped_R2.fastq.gz

  7. baseout: Quartet-RNA-D5-3-test.clipped

  8. idx_prefix: genome

  9. genome_directory: oss://pgx-storage-results/yangjingcheng/reference/genome/

  10. gtf: oss://pgx-storage-results/yangjingcheng/reference/genome/genes.gtf

  11. adapter: oss://pgx-storage-results/yangjingcheng/reference/illumina_adapter/TruSeq3-PE.fa

  12. 

  13. # Default Value

  14. fastqc_docker: registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/fastqc:v0.11.5

  15. trimmomatic_docker: registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/trimmomatic:v0.3.8

  16. tophat2_docker: registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/tophat2:2.0.14

  17. cuffdiff2_docker: registry.cn-shanghai.aliyuncs.com/pgx-docker-registry/cufflinks:v2.2.1

  18. ```