Changes between Version 9 and Version 10 of SOPs/Hi-C


Ignore:
Timestamp:
02/02/26 14:16:04 (2 weeks ago)
Author:
gbell
Comment:

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  • SOPs/Hi-C

    v9 v10  
    3131=== Analysis outline ===
    3232 * [#SetConfig Set up the HiC-Pro configuration file]
    33  * [#Submit Submit data processing to the LSF batch queue]
     33 * [#Submit Submit data processing to the computing cluster]
    3434 * [#ContactMaps Generate contact map visualizations from processed Hi-C data]
    3535
    … …  
    134134
    135135
    136 === [=#Submit Submit data processing to the LSF batch queue] ===
     136=== [=#Submit Submit data processing to the computing cluster] ===
    137137
    138 The essential command to include when submitting HiC-Pro computations to the LSF batch queue is given below, where config.txt is located in the working directory, as are the rawdata and hicproOut subdirectories.  As also specified in the (config.txt) configuration file, HiC-Pro will create bowtie_results and hic_results subdirectories beneath hicproOut.
     138The essential command to include when submitting HiC-Pro computations to the computing cluster is given below, where config.txt is located in the working directory, as are the rawdata and hicproOut subdirectories.  As also specified in the (config.txt) configuration file, HiC-Pro will create bowtie_results and hic_results subdirectories beneath hicproOut.
    139139{{{
    140140/usr/local/HiC-Pro_2.11.1/bin/HiC-Pro -c config.txt -i rawdata/ -o hicproOut