| Accession | GMS-65-1 (FID: 228) mESC1.intra.hic |
| Title | Intra-chromosomal Hi-C contacts (mESC Rep1) |
| Submit date | 2022-01-31 12:21:48 |
| Last update date | 2023-09-11 13:16:53 |
| Contact | GMSuite GENOMEMODALITY gmsuite AT hgc.jp The University of Tokyo |
| Sharing | open access |
| Keywords | Chromatin PHi-C Hi-C |
| HiC file | mESC1.intra.hic (1.69 GB) hic mCool Cooler-Tree |
| Submit date | 2022-04-12 02:29:48 |
| Input file | chr1-113073000-125292000_25000_KR.txt |
| Result file | chr1-113073000-125292000_25000_KR.tar.gz |
| Reference | mm10 (Mouse) |
| Configuration | chr1:113073000-125292000
Browse
25Kb resolution 489 bins KR normalization mCool(KR) |
%>juicer_tools dump observed KR mESC1.intra.hic chr1:113073000:125292000 chr1:113073000:125292000 BP 25000 chr1-113073000-125292000_25000_KR.txt%>phic2.py preprocessing --input chr1-113073000-125292000_25000_KR.txt --res 25000 --plt-max-c 0.1%>phic2.py optimization --name chr1-113073000-125292000_25000_KR%>phic2.py plot-optimization --name chr1-113073000-125292000_25000_KR --res 25000 --plt-max-c 0.1 --plt-max-k-backbone 1 --plt-max-k 0.1 --plt-k-dis-bins 200 --plt-max-k-dis 100%>phic2.py dynamics --name chr1-113073000-125292000_25000_KR --interval 100 --frame 1000%>phic2.py sampling --name chr1-113073000-125292000_25000_KR --sample 1000%>phic2.py rheology --name chr1-113073000-125292000_25000_KR%>phic2.py plot-compliance --name chr1-113073000-125292000_25000_KR --plt-upper 0 --plt-lower -3 --plt-max-log 1.3 --plt-min-log -0.3 --aspect 0.2%>phic2.py plot-modulus --name chr1-113073000-125292000_25000_KR --plt-upper 0 --plt-lower -3 --plt-max-log 0.4 --plt-min-log -1.2 --aspect 0.2%>phic2.py plot-tangent --name chr1-113073000-125292000_25000_KR --plt-upper 0 --plt-lower -3 --plt-max-log 0.2 --aspect 0.2
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| PHi-C2 |
