https://yiweiniu.github.io/blog/2019/03/ATAC-seq-data-analysis-from-FASTQ-to-peaks/A similar github page presenting an ATAC-seq pipeline https://galaxyproject.github.io/training-material/topics/epigenetics/tutorials/atac-seq/tutorial.html
If you use ATACgraph for your analysis, please cite it using the followingmanuscript Lu RJ, Liu YT, Huang CW, Yen MR, Lin CY, Chen PY. ATACgraph: Profiling Genome-Wide Chromatin Accessibility From ATAC-seq. Front Genet. 2021 Jan 13;11:618478. https://www.frontiersin.org/articles/10.33...
ATAC-seq是经典的研究染色质开放性手段，将其结果与转录组或其他表观组学关联，即可获得染色质开放性对...
ATAC-seq利用过度活跃的Tn5转座酶来探测DNA的可及性,并将测序adapters插入到染色质的可及性区域。测序reads可用于推断可及性增加的区域,以及绘制转录因子结合区域和核小体位置。该方法相对于DNase-Seq和MNase具有快速和高敏感度的特点。 在ATAC-seq 实验中,Tn5 结合并切割染色质连接接头。对片段进行测序以识别开放染...
ChIP-seq：直接检测与转录因子结合的DNA序列，但一次测序只能提供一个转录因子的信息，检出率相对较低。D...
Monocle - [R] - Differential expression and time-series analysis for single-cell RNA-Seq. Muscat - [R] - muscat (Multi-sample multi-group scRNA-seq analysis tools ) provides various methods for Differential State (DS) analyses in multi-sample, multi-group, multi-(cell-)subpopulation scRNA-...