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Hi
I've question, whenever xCell performs the ssGSEA analysis, it only uses the ~10,000 genes from the immune signatures, right? So, no problem if the input matrix is a 60,000 transcript or just 20…
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**Use case**
I have a series of ChIP-seq samples that I eventually want to perform differential peak calling and motif enrichment analysis upon between different treatment groups (and input).
*…
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Sequencing runs from MiSeq and HiSeq were sometimes determined to be unsuccessful after the FASTQ data have been subjected to the DEL analysis pipeline. If the counts are too low, then the sequencing …
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### Describe the bug
SARIF format is not on-par with the JSON format.
### Current behavior
SARIF format is missing most of the JSON format information:
- No license (FOSS) information at a…
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[Steps in data analysis](http://barc.wi.mit.edu/education/hot_topics/ChIPseq_2016/AnalysisofChIP-seqData2016.pdf)
0. **Preprocessing**:
i) Bad quality -> Tool: Use “FASTQ Quality Filter” and/or …
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Due to the number of studies will increase during the next months, it is needed to design a way to allow the system to check whether the result obtained is the expected. The example of this is the "ar…
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**Is your feature request related to a problem? What value do you see this adding? Please describe.**
For Pathway tab, we need to add download option of the enriched pathways with the normal informat…
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Making a thread for anyone who wants to claim sections tentatively, and where people can share what they want help with for a section. I can update this post to reflect any comments people post below.
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Hi,
I was wondering if there is a way to use precomputed loops (bedpe file) from mustache in the enrichment analysis?
Thank you
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Dear Guangchuang,
Big fan of all the R suites your group develop!
I have a question regarding the universal gene list used in the `enricher` function for the Over Representation Analysis.
Test …