User: abhishek.mitra

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Switzerland
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2 years, 6 months ago
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4 years, 6 months ago
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Posts by abhishek.mitra

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Comment: C: Tool to annotate ChIP-Seq peaks (hg19 or mm10) and find neighboring peaks from m
... I used mouse enhancer data from: http://chromosome.sdsc.edu/mouse/download.html Super enhancers are from http://bioinfo.au.tsinghua.edu.cn/dbsuper/ses.php?genome=hg19&cell_type=C_001 You may switch the enhancers bed files with your own annotation of enhancers which might be more suitable for ...
written 3.8 years ago by abhishek.mitra10
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Tool: Tool to annotate ChIP-Seq peaks (hg19 or mm10) and find neighboring peaks from multiple experiments.
...   https://github.com/goxed/peak-tool Wrote this c++ tool for internal use in our lab for some of our custom analysis, thought it might be a good idea to share it with the community. It's a simple program to annotate human hg19 or mouse mm10 aligned ChIP-Seq peak files. This tool also takes multip ...
chip-seq tool written 4.4 years ago by abhishek.mitra10 • updated 3.8 years ago by tamars10
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Answer: A: Enhacers find out with Homer
... Try my tool. It will report enhancers for any human peak file (currently supports hg19) in BED format. It needs atleast 20GB RAM though https://github.com/goxed/peak-tool   ...
written 4.5 years ago by abhishek.mitra10

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