User: h.long

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h.long30
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h*****@har.mrc.ac.uk

Posts by h.long

<prev • 4 results • page 1 of 1 • next >
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Tools to calculate directionality index
... Hi, I am looking for a software tool which will allow me to use the directionality index to call TADs as defined by [Dixon et al. 2012][1]. I found a tool called [Domain caller][2] which I believe has been created by the authors of the paper, however [Rao et al. 2014][3] used this tool in the supp ...
R next-gen written 9 months ago by h.long30 • updated 8 months ago by Biostar ♦♦ 20
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Hicexplorer error using hicBuildMatrix: no such file as qc_template.html
... Hi, I am trying to run HiCExplorer but I am encountering the following error when trying to use hicBuildMatrix. > INFO:hicexplorer.hicBuildMatrix:reading ../SRR1956527_1.bam and ../SRR1956527_2.bam to build hic_matrix >INFO:hicexplorer.hicBuildMatrix:processing 5051931 lines took 39.13 se ...
hicexplorer written 16 months ago by h.long30 • updated 12 months ago by wolffj.bioinf10
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Comment: C: Best Software for analysis of Hi-C data
... Hi Devon, Thanks for your suggestion. The original publication for HiCExplorer was done on drosophila but I assume it can also be used for high organisms such as humans and mice? Thanks! ...
written 17 months ago by h.long30
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Best Software for analysis of Hi-C data
... Hi, I am just getting started analyzing Hi-C data to call TADs. It seems that there is not yet a consensus on which software tools are best to make an analysis pipeline. I have so far tried [Hicup][1] (from Babraham) for alignments, [homer][2] for making heatmaps and have been trying to install [J ...
next-gen sequencing written 17 months ago by h.long30 • updated 17 months ago by Devon Ryan93k

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