User: dthaper

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dthaper0
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Posts by dthaper

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Comment: C: Extracting gene ID of overlapping peaks between different Chip-seqs
... Thanks for the correction on the double call! Unfortunately it gives the same error: df4 <- data.frame(genes) Error in (function (..., row.names = NULL, check.rows = FALSE, check.names = TRUE, : arguments imply differing number of rows: 13472, 38622, 39500 I'm unable to assign df4 with ...
written 8 months ago by dthaper0
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Extracting gene ID of overlapping peaks between different Chip-seqs
... Hello, I am conduced chip-seq for proteins that are part of a complex. Peak1 - AR Peak2 - EZH2 Peak3 - pEZH2 From the chip seeker analysis pipeline PMID:28416945, I was able to get to a point in the pipeline that spits out a venn diagram showing common peaks between the 3 chip-seqs. ...
R chip-seq written 8 months ago by dthaper0 • updated 8 months ago by zx87547.3k
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Answer: A: ChipSeeker Heatmap (y-axis)?
... anyone able to help with this? ...
written 11 months ago by dthaper0
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Comment: C: ChipSeeker Heatmap (y-axis)?
... The center of the heatmap is transcription start sites. Peaks in the middle is binding at the TSS. Peak 1 has over 10,000 binding sites while Peak 2 has around 700. But since the Y-axis is the same, Peak 2 looks like it has more binding to an un-trained eye. Its hard to present the data this way. ...
written 12 months ago by dthaper0
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ChipSeeker Heatmap (y-axis)?
... I was wondering if there is a way to adjust the Y-axis on the Heatmap produced through Chipseeker. I am pulling down a transcription factor with and without its inhibitor. As expected, there are considerably less peaks in the heatmap, however, they are spread out along the same Y-axis and therefore ...
chip-seq chipseeker written 12 months ago by dthaper0 • updated 9 months ago by Rashedul Islam300

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