Changes between Version 70 and Version 71 of SOPs/chip_seq_peaks


Ignore:
Timestamp:
10/19/21 10:42:39 (3 years ago)
Author:
thiruvil
Comment:

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  • SOPs/chip_seq_peaks

    v70 v71  
    216216
    217217   * Mapping: bowtie2 can be used for aligning the reads with the following parameters (for paired-end reads)
    218       * --local (end-to-end read alignment not required)
    219       * --very-sensitive-local
     218      * end-to-end read alignment not required:
     219        * --local
     220        * --very-sensitive-local
    220221      * concordant pairs only:
    221222        * --no-mixed
    222223        * --no-discordant
    223       * -I 10 (min fragment length)
    224       * -X 700 (max fragment length)
     224      * min/max fragment length, respectively
     225        * -I 10
     226        * -X 700
    225227
    226228   * Calling peaks: MACS2 //callpeak// is suitable to call peaks