User: Sho

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Sho0
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Posts by Sho

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Comment: C: Flip the heatmaps of ChIP-seq data to match TSS of +/- strand in deeptools
... It worked! Thank you! ...
written 8 weeks ago by Sho0
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Comment: C: Plot a dotted line to the start of the regions in computeMatrix, deepTools
... Thanks for your comment. Actually I used "--referencePoint center" option, but it gave me a dotted line only on the end of the regions as explained in the deepTools homepage. The command I used was like this: **computeMatrix reference-point --referencePoint center -b 1000 -a 1000 -bs 10 -R *.bed - ...
written 8 weeks ago by Sho0
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Flip the heatmaps of ChIP-seq data to match TSS of +/- strand in deeptools
... Hello everyone, I'm now making heatmaps from ChIP-seq data to see the tendency of where transcription factors(TFs) bind. I have a list of **promoter** regions(10bp to 2000bp) including chr, start and end. (start < end) When I plotted ChIP-seq data into these regions, the pattern of heatmaps loo ...
chip-seq written 9 weeks ago by Sho0 • updated 9 weeks ago by Devon Ryan97k
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Plot a dotted line to the start of the regions in computeMatrix, deepTools
... Hello, I'm now dealing with ChIP-Seq data to make heatmaps using deepTools 3.5. In the process of "computeMatrix", I know I can add a dotted line to indicate the end of the regions by adding "--sortUsing region_length". However, is there anyway I can add a dotted line to the start of the regions? ...
chip-seq tool written 9 weeks ago by Sho0 • updated 9 weeks ago by Devon Ryan97k

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