Changes between Version 85 and Version 86 of SOPs/atac_Seq

Timestamp:

07/09/21 15:03:35 (4 years ago)

Author:

byuan

Comment:

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SOPs/atac_Seq

@@ -205 +205 @@
 }}}
 
-   * The [https://www.encodeproject.org/atac-seq/#standards ENCODE project] has [[https://www.encodeproject.org/atac-seq/#standards|recommendations]] on TSS enrichment scores (ENCODE uses one tss to represent a gene, not one tss per transcript.  TSS score is much smaller with one tss per transcript), fragment size distribution. You can also download ENCODE pipeline and analyze your samples with the pipeline. Its QC output html file includes quality controls results and their interpretation. It also estimates the library complexity based the uniqueness of reads.  
+   * The [https://www.encodeproject.org/atac-seq/#standards ENCODE project] has [[https://www.encodeproject.org/atac-seq/#standards|recommendations]] on TSS enrichment scores (ENCODE uses one tss to represent a gene, not one tss per transcript.  TSS score is much smaller with one tss per transcript), fragment size distribution. You can also download ENCODE pipeline and analyze your samples with the pipeline. Its QC output html file includes quality controls results and their interpretation. It also estimates the library complexity based the uniqueness of reads.  Here is a [[http://barc.wi.mit.edu/education/hot_topics/ChIPseq_ATACseq_2021/qc.html | sample QC report]]. 
+
 
    * [[https://www.sciencedirect.com/science/article/pii/S240547122030079X|ataqv]] summarizes QC results into an interactive html page, which also allows you to view multiple samples together.