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I have a few TFs that appear to be missing from the TF list seen in this file: hs_hgnc_tfs.txt, which is available in the resources folder. The TFs are:
ZFHX4
AEBP1
CXXC5
TSHZ2
They are also mi…
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Overlap and perform analysis as in #28
## Changes
- RNA-seq data is from literature.
- **`rna_cutoff`**: Instead of using (`lfc > 1` & `qval < 0.05`), now we only use (`lfc > 1`).
## Results d…
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### Project short name:
CutaneousTcellLymphomaSTAT6
### Primary Wrangler:
Ami
### Secondary Wrangler:
Ida
### Associated files
* Google Drive:
https://docs.google.com/spreadsheets/d/1SN-9T3V0F…
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**Is your feature request related to a problem? Please describe.**
Sometimes we have issue with GC dropout but we do not trend this so we cannot improve our analysis (wetlab). We get GC dropout for t…
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I can't seem to find documentation describing all the outputs of clusterprofiler, can you please explain to me what BgRatio is used for, and what does it evaluate?
I assume that GeneRatio is the o…
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Hi Dr. Ma,
Can netgsa be used for the time-course study design, e.g. repeated measure? Thank you.
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In the Li 2018, [Cell](10.1016/j.cell.2018.11.043) publication they find a continuum between cytotoxic cells and cell expression exhaustion markers. They also show that cells expression markers of wha…
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Hi,
I encounter an ERROR when running gofilter, the input generated from compareCluster function.
Did anyone meet this before?
![image](https://github.com/user-attachments/assets/4d5bac87-988f-44…
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Hi anders,
Very powerful and effective tools for single cell methylation data analysis, but I wonder if you have consider the batch efforts across different library, and how to remove batch effort …
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**Problem**: In many table we have long descriptions that force the table to be very wide or overflow.
**possbile solution**: In some table we have truncated the descriptions, a better solution is…