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Hi, I want to do TF footprinting centered on certain genes' TSS. So, I provided a list for peak regions where TSS are located to 'region' and their names to 'key' argument. However, out of the 17 regi…
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Greetings,
Awesome package! I just was introduced to it via my StackOverflow question [here](https://stackoverflow.com/questions/70747032/programmatically-label-multiple-ablines-in-r-ggplot2/707479…
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Hi, I am running CAGEr using a (large) custom genome. Starting with the bam files, I am getting BiocParallel error already with the getCTSSes function. Could you help me to identify the problem? THANK…
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Hi Alan,
We've come really far with this package and since we finished some major issues such as text smoothing, sf-text and richtext, I thought it is a good time to discuss what the next steps wou…
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I have a new feature idea for labelling more noisy curves.
Currently, our text placement is too fancy to conveniently label a noisy curve. For example, in the plot below I want to label the decline…
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Hello,
I am having an issue getting the Giotto (v1.0.4) python environment working while running on a linux environment. I have tried using both `installGiottoEnvironment()` and creating the conda en…
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First of all, thanks for making a package out of the answer to my SO question!
I finally got around to installing and using what you have so far (impressive!), and it took me awhile to figure out h…
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Knitting Rmd files with BiocStyle:pdf_document output (BiocStyle 2.20.1) fails with error
`! LaTeX Error: Missing \begin{document}.`
even for the following trivial example when using the latest…
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Would it be possible to create a function within xgx to plot negative values with a log-scale? I have a quick and dirty solution, but it is kinda ugly. A neater solution would be helpful.
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I am running the following code
# manova for all groups
t1$cal_manova(cal_manova_all = TRUE)
t1$res_manova$aov.tab
# manova for each paired groups
t1$cal_manova(cal_manova_paired = TRUE)
t1$…