Changes between Version 1 and Version 2 of SOPs/CUT&Tag


Ignore:
Timestamp:
12/05/23 15:55:09 (14 months ago)
Author:
ibarrasa
Comment:

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  • SOPs/CUT&Tag

    v1 v2  
    66  * We recommend using [https://hbctraining.github.io/Intro-to-ChIPseq/lessons/05_peak_calling_macs.html MAC2] to call peaks because the peaks tend to be narrower and better capture the tagged regions.
    77  * We recommend not removing duplicates from any of the samples.
    8   * Spike-in calibration using the number of fragments mapped to the E. coli genome, as described on the Henikoff lab analysis, is be useful for visualization of the CUTTag profile on a browser.
     8  * Spike-in calibration using the number of fragments mapped to the E. coli genome, as described on the Henikoff lab analysis, is be useful for visualization of the CUTTag profile on a genome browser.
    99  * Spike-in normalized bedgraph files are not an appropriate input for MACS2, since MACS2 will renormalize to the library size.