- https://github.com/hermanzhaozzzz/snakepipes_fastqc-multiqc 先跑质控流程，主要是看看需不需要trim 5‘ 端的不稳定序列和3'端质量不够高的reads
- 跑mapping流程，如果是star mapping，就用这个流程即可
- 执行Snakefile进行 cutadapt、Star mapping、bam sort等处理
- 后续1，可以选择GATK SNP calling和差异表达分析
- 后续2，差异表达基因
- 可以使用Snakefile.fc.deseq2.py计算差异表达基因的featureCounts
- 并且使用format_all.featureCounts.form.ipynb整理表格数据
- 最后使用DESeq2_plots.ipynb绘图
-
Notifications
You must be signed in to change notification settings - Fork 0
hermanzhaozzzz/snakepipes_RNA-seq
Folders and files
| Name | Name | Last commit message | Last commit date | |
|---|---|---|---|---|
Repository files navigation
About
No description, website, or topics provided.
Resources
Stars
Watchers
Forks
Releases
No releases published
Packages 0
No packages published