Changes between Version 35 and Version 36 of SOPs/atac_Seq


Ignore:
Timestamp:
03/15/21 16:26:48 (4 years ago)
Author:
thiruvil
Comment:

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  • SOPs/atac_Seq

    v35 v36  
    239239  * Unless you have high coverage, use all reads for downstream analysis and not remove mono-, di-, tri-, etc. nucleosome fragments or reads.  Otherwise, you may miss many open chromatin regions during peak calling.
    240240  * The nucleosome free region (NFR) should be > 38bp to < 147 bases (one nucleosome); mono nucleosome fragments are in the range of 147-200 bp
     241    * Shorter reads lengths, e.g. 50x50 or 75x75, should be used instead of longer reads, e.g. 100x100.
    241242  * For calling open/accessible regions, at least ~50M reads are recommended.
    242243  * For transcription factor footprinting, at least ~200M reads are recommended.