User: Guangchuang Yu

gravatar for Guangchuang Yu
Guangchuang Yu1.1k
Reputation:
1,070
Status:
Trusted
Location:
China/Guangzhou/Southern Medical University
Website:
https://guangchuangyu....
Twitter:
guangchuangyu
Scholar ID:
Google Scholar Page
Last seen:
2 months ago
Joined:
6 years, 11 months ago
Email:
g************@gmail.com

Bioinformatics Professor at Southern Medical University.

Posts by Guangchuang Yu

<prev • 300 results • page 1 of 30 • next >
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Answer: A: Highligting specific tips/taxa with asterisk using ggtree
... something like this to add another layer of tip labels, (whether "*" or ""). ...
written 8 weeks ago by Guangchuang Yu1.1k
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Comment: C: Is compareCluster() reproducible?
... any reproducible example? ...
written 9 weeks ago by Guangchuang Yu1.1k
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Answer: A: error in keytype performing "enrichGO" from clusterprofiler
... `get_GO_data` need to query "GOALL", "ONTOLOGYALL" from `OrgDb` and it seems your OrgDb doesn't contain such information. BTW: You can use `enricher` to perform GO analysis without using `OrgDb`. ...
written 4 months ago by Guangchuang Yu1.1k
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Answer: C: How to change the siez of lables in heatmap
... pls refer to the ggplot2 theme reference, . ...
written 5 months ago by Guangchuang Yu1.1k
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Answer: A: kegg enrichment using clusterProfiler could not read KEGG Orthology IDs
... >keggID <- c("K15179", "K03377") > x <- enrichKEGG(keggID, organism='ko', keyType='kegg') >--> No gene can be mapped.... > --> Expected input gene ID: K10780,K16305,K08093,K14275,K18819,K22554 > --> return NULL... Usually, this means that you are using the wrong ID. ...
written 6 months ago by Guangchuang Yu1.1k
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Comment: C: MeSH enrichment analysis with "meshes"
... what's the output of `traceback()` immediately run after the error appear? ...
written 6 months ago by Guangchuang Yu1.1k
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Comment: C: Gene similarity by GOSemSim
... pls provide `k` to make your code reproducible. ...
written 6 months ago by Guangchuang Yu1.1k
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Comment: C: how to get frequencies from plotDistToTSS
... as the output is a ggplot object, you can try: p <- plotDistToTSS(...) p$data The p$data should contains relative information. ​ ...
written 6 months ago by Guangchuang Yu1.1k
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Comment: C: Semantic similarity across entire MeSH tree in meshes pkg
... mixed category is not supported, similar to BP, CC and MF of GO. You should separate and analysis respectively. ...
written 6 months ago by Guangchuang Yu1.1k
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Comment: C: How to convert data frame obtained with enrichPathway back to an enrichPathway r
... you should emapplot(x) but not using x@result. ​ ...
written 7 months ago by Guangchuang Yu1.1k

Latest awards to Guangchuang Yu

Guru 9 months ago, received more than 100 upvotes.
Scholar 11 months ago, created an answer that has been accepted. For A: ReactomePA - Pathway analysis for DE porcine genes
Teacher 11 months ago, created an answer with at least 3 up-votes. For A: How to do simple Fisher' exact test for overlapped genomic interval in R?
Teacher 13 months ago, created an answer with at least 3 up-votes. For A: How to do simple Fisher' exact test for overlapped genomic interval in R?
Scholar 2.1 years ago, created an answer that has been accepted. For A: clusterprofiler KEGG enrichment for arabidopsis
Scholar 2.1 years ago, created an answer that has been accepted. For A: Clusterprofiler - MSigDB gene set analysis - Updated
Scholar 2.1 years ago, created an answer that has been accepted. For A: clusterProfiler : How works the q-value filtering ? What is a good cutoff ? Is t
Scholar 2.1 years ago, created an answer that has been accepted. For A: Sort clusterProfiler result
Scholar 2.1 years ago, created an answer that has been accepted. For A: Pathway analysis using ReactomePA::enrichPathway(): doubts about minGSSize and m
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: How to do simple Fisher' exact test for overlapped genomic interval in R?
Supporter 2.1 years ago, voted at least 25 times.
Scholar 2.1 years ago, created an answer that has been accepted. For A: ReactomePA - Pathway analysis for DE porcine genes
Scholar 2.1 years ago, created an answer that has been accepted. For A: clusterProfiler for Zebrafish (Danio rerio)
Scholar 2.1 years ago, created an answer that has been accepted. For A: Is it possible to coerce dataframe to enrichResult class in clusterProfiler?
Scholar 2.4 years ago, created an answer that has been accepted. For A: Is it possible to coerce dataframe to enrichResult class in clusterProfiler?
Popular Question 2.4 years ago, created a question with more than 1,000 views. For new package `ggtree` in devel branch
Centurion 3.2 years ago, created 100 posts.
Scholar 3.2 years ago, created an answer that has been accepted. For A: Is it possible to coerce dataframe to enrichResult class in clusterProfiler?
Scholar 3.2 years ago, created an answer that has been accepted. For A: clusterProfiler : How works the q-value filtering ? What is a good cutoff ? Is t
Scholar 3.2 years ago, created an answer that has been accepted. For A: Sort clusterProfiler result
Scholar 3.2 years ago, created an answer that has been accepted. For A: #clusterProfiler# KEGG enrichment with non-reference species
Scholar 3.2 years ago, created an answer that has been accepted. For A: ChIPseeker question: provide custom csAnno to plots
Popular Question 3.2 years ago, created a question with more than 1,000 views. For new package `ggtree` in devel branch
Scholar 3.5 years ago, created an answer that has been accepted. For A: GOSemSim problem for yeast proteins
Teacher 3.5 years ago, created an answer with at least 3 up-votes. For A: How to do simple Fisher' exact test for overlapped genomic interval in R?

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