Dear all,
I'm relatively new to the "ATAC-seq technology", I performed an ATAC-seq experiment using different cell lines (non transformed and cancer cell lines) and recently I received the sequencing (Raw) data.
I will be very grateful if you can share with me tutorials/reviews or useful links in order to analyze my ATAC-seq data (python or R scripts, pipelines.........)
Many thanks in advance
Karim
@ karim, Hope the below links will be helpful to you.
https://www.bioconductor.org/packages/release/bioc/html/esATAC.html
https://galaxyproject.github.io/training-material/topics/epigenetics/tutorials/atac-seq/tutorial.html
https://informatics.fas.harvard.edu/atac-seq-guidelines.html
Best references:
https://academic.oup.com/bioinformatics/article/34/15/2664/4924216
Article From reads to insight: A hitchhiker's guide to ATAC-seq data analysis
Article GUAVA: A graphical user interface for the analysis and visua...
Best of luck with your analysis.
Hi Karim,
I may add here that my current focus of research has been shifted in these field. it is very new concept but has been going around since some years back. I know it is very hard to understand at first, here I am attaching links of some recent articles which can help you and can guide you to web pages for more tutorials and knowledge.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6317448/
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7034356/
I hope you find them useful.
Best,
Hamid
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