接前面文章:ChIP-seq | ATAC-seq | RNA-seq | 数据分析流程 前面已经把pipeline跑完了,但是关于结果的解读还是不清楚,这里来深入探讨一下。 复习: pipeline:https://github.com/ENCODE-DCC/chip-seq-pipeline2
Get the latest version of the pipeline. $ git clone https://github.com/kundajelab/TF_chipseq_pipeline Dependencies Install software dependencies automatically. It will create two conda environments (aquas_chipseq and aquas_chipseq_py3) under your conda. ...
ENCODE ChIP-seq pipeline. Contribute to ENCODE-DCC/chip-seq-pipeline2 development by creating an account on GitHub.
pipeline:https://github.com/ENCODE-DCC/chip-seq-pipeline2 大致流程图:https://www.encodeproject.org/pipelines/ENCPL272XAE chip-seq教程:Introduction to ChIP-Seq using high-performance computing 教程课时清单 课程公众号中文翻译版 输入文件:~/project/epigenetic/analysis/ChIP-seq/encode-pipeline/encc/H3...
ENCODE-DCC/rna-seq-pipeline 安装比较麻烦,没有针对local的一键安装,但我们可以借鉴Dockerfile文件里面的安装方法。 也可以模仿chip-seq-pipeline2/scripts/install_conda_env.sh的安装方法。 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 ...
pipeline :https://github.com/BradyLab/ChipSeq/blob/master/chipseq.sh https://github.com/crukci-bioinformatics/chipseq-pipeline https://github.com/ENCODE-DCC/chip-seq-pipeline Hands-on introduction to ChIP-seq analysis - VIB Traininghttp://www.biologie.ens.fr/~mthomas/other/chip-seq-training...
pipeline :https://github.com/BradyLab/ChipSeq/blob/master/chipseq.sh https://github.com/crukci-bioinformatics/chipseq-pipeline https://github.com/ENCODE-DCC/chip-seq-pipeline Hands-on introduction to ChIP-seq analysis - VIB Traininghttp://www.biologie.ens.fr/~mthomas/other/chip-seq-training...
## pipeline : https://github.com/BradyLab/ChipSeq/blob/master/chipseq.sh ## https://github.com/crukci-bioinformatics/chipseq-pipeline ## https://github.com/ENCODE-DCC/chip-seq-pipeline ## Hands-on introduction to ChIP-seq analysis - VIB Training http://www.biologie.ens.fr/~mthomas/ot...
也可以使用其它代码进行下游分析;https://github.com/jmzeng1314/NGS-pipeline/tree/master/CHIPseq homer软件来寻找motif 转录因子往往倾向于结合在特定的 DNA 序列上,这些 DNA 序列通常具有高度相似的核苷酸序列模式,即每个转录因子都有一个目标 DNA 序列的 Motif,公开发表的转录因子数据库中一般记录了转录因子对应的...
https://github.com/jmzeng1314/NGS-pipeline/tree/master/CHIPseq http://www.bio-info-trainee.com/2773.html 当然,方法不止一种,使用Chipseeker包的过程中,有些关联包的更新会导致不可用,这时候要更新到GitHub最新的版本才可。 下一步便是继续寻找motif。