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Hi,
Many thanks for adding Hi-C support. I also deal with chromHMM state data.
can you please add visualizing epilogos?
https://epilogos.altiusinstitute.org/
https://github.com/Altius/epilogo…
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> Transcription regulation in multicellular eukaryotes is orchestrated by a number of DNA functional elements located at gene regulatory regions. Some regulatory regions (e.g. enhancers) are located f…
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Add additional enhancer information for overlapping rather than just ones that have a gene target (FANTOM5). Also add a heatmap next to the first tab to show which ChromHMM state overlaps each predict…
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Hi Zuguang,
```{r}
library(EnrichedHeatmap)
library(GenomicFeatures)
load(system.file("extdata", "chr21_chromatin_states.RData", package = "EnrichedHeatmap"))
load(system.file("extdata", "chr…
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Hi there, first of all thanks for sharing the code and I'm looking forward to your paper when it comes out. This is not an issue of your tool, but I would really appreciate your insight since you have…
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https://dx.doi.org/10.1101/041616
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Starting from e.g: https://github.com/hussius/deeplearning-biology or https://github.com/greenelab/deep-review select a set of models, rebuild and re-train them in Keras.
## Spreadsheet of models t…
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Hi SO,
Some of the INSDC /regulatory_class terms currently lack a match to an SO term. Since we'd like to map all terms to SO (see issue #378 for more background), can you consider making an SO ent…
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Two issues with this term:
1. I noticed that the definition of the term "**RNA polymerase II transcription factor complex**" seems too narrow. My recollection is that people also refer to the compl…
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Hi Zuguang,
Just found that now it supports for chromatin state data https://github.com/jokergoo/EnrichedHeatmap/issues/24 . for clustering, what clustering method and distance is used?
or could…