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Hello Mette,
Thanks again for the TOBIAS software, we are finding it very useful for our project. This time around we had a question regarding the output in Fig 2 of the preprint, clustering TFs b…
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My purpose is to use the open chromatin regions to do MEME analysis to get the potential motif in the open chromatin regions, in this way, which column I should use in the Name_peaks.gappedPeak
? Is …
xpan1 updated
5 years ago
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For some improvements to logical definitions in FYPO, we'd like to request some CC terms for chromosome regions:
id: GO:new1
name: rDNA replication pause site heterochromatin
def: "A region of he…
mah11 updated
4 years ago
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Hi timoast,
Signac is a great tool. Thanks for that!
I would like to extract the normalized accessibility data for all identities as plotted with CoveragePlot. With this data, I would like to know a…
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Quality control of ATAC-Seq data showed that one of samples showed bad qualities, since this method is based on machine learning (self-study process), I was wondering whether HMMRATAC can be used to d…
xpan1 updated
5 years ago
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In my data of all samples, the results showed significant different peak numbers cross all the samples? Why that happened? What should I do with that? In the Troubleshooting part5, I checked my model,…
xpan1 updated
5 years ago
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I have been trying to visualize Chromatin interactions on the Epigenome browser for a region of interest, however as soon as I select 'VR mode' in Settings the browser freezes and then the page crushe…
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When two lines have the same "title" AND "year" AND "authors" keep only one (the first? the most complete?)
Below the three key in ISI and SCOPUS:
- title --> ISI = TI / Scopus = Title
- year -->…
tommv updated
3 years ago
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It seems all test cases with that option fail with the following (first) error:
Error: Type checker found wrong number of fields while tokenizing data line.
Perhaps you have extra TAB at the end of …
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Hi @ebergstr,
Thanks for the amazing tool. I was just thinking is it possible (with current implementation or with some modifications) to annotate each variant in the input files with the context (…