Hi all,
I have a question about manually sorting the '.validPairs'. I found that after running the 'mapped_2hic_fragments.py ' script, there is no sorting of the '.validPairs', and I ran the code in the log I got from the previous process and found that it doesn't seem to react. Is there any way to fix this? The code I used is listed below.
The current directory contains all the files or tmp directories needed for this command, and there are roughly 70,000,000 lines in '.validPairs'. I'm using HiCPro version 2.11.4. Because '-s proc_hic' had some problems running, I switched to running all commands manually.
Miracle-Yao
commented
1 year ago
Hi all, I have a question about manually sorting the '.validPairs'. I found that after running the 'mapped_2hic_fragments.py ' script, there is no sorting of the '.validPairs', and I ran the code in the log I got from the previous process and found that it doesn't seem to react. Is there any way to fix this? The code I used is listed below.
LANG=en; sort -T tmp -k2,2V -k3,3n -k5,5V -k6,6n -o CTCF_HiChIP.valid_hg38.bwt2pairs.sorted.validPairs CTCF_HiChIP.valid_hg38.bwt2pairs.validPairsThe current directory contains all the files or tmp directories needed for this command, and there are roughly 70,000,000 lines in '.validPairs'. I'm using HiCPro version 2.11.4. Because '-s proc_hic' had some problems running, I switched to running all commands manually.
Thanks