User: Guangchuang Yu

gravatar for Guangchuang Yu
Guangchuang Yu2.0k
Reputation:
2,030
Status:
Trusted
Location:
China/Hong Kong/The University of Hong Kong
Website:
https://guangchuangyu....
Twitter:
guangchuangyu
Scholar ID:
Google Scholar Page
Last seen:
1 month ago
Joined:
7 years, 1 month ago
Email:
g************@gmail.com

I study Systems Biology at The University of Hong Kong.

Email: guangchuangyu@gmail.com

Posts by Guangchuang Yu

<prev • 182 results • page 1 of 19 • next >
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Answer: A: Plot lines color change in plotAvgProf2 [ChIPseeker]
... see `?ggplot2::scale_color_manual` ...
written 4 weeks ago by Guangchuang Yu2.0k
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1
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Answer: C: Showing more terms in the result of GESA by ClusterProfiler
... Try to use different `qvalueCutoff` value as cut off. ...
written 11 weeks ago by Guangchuang Yu2.0k • updated 8 weeks ago by zx87546.1k
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1
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138
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Answer: A: extract gseaResult in clusterprofiler
... `as.data.frame` to convert the object to data frame? ...
written 11 weeks ago by Guangchuang Yu2.0k
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Comment: C: ClusterProfiler cannot map any gene
... see and the package vignette. You need to specify the ID type if it is supported. ...
written 12 weeks ago by Guangchuang Yu2.0k
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Comment: C: ClusterProfiler cannot map any gene
... no it does work with gene symbol if you specify the `keyType = "SYMBOL"` ...
written 12 weeks ago by Guangchuang Yu2.0k
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Answer: A: How to convert fasta file format to phylip file format
... `ggtree` support `phylip` tree format but not `phylip` mutiple sequence alignment. the `phylip` tree file contains msa in the famous `phylip` format with additional record of corresponding tree in `newick` text. `ggtree` supports visualizing phylogenetic tree and you need to have a tree before pas ...
written 3 months ago by Guangchuang Yu2.0k
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1
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Answer: A: GSEA results change in clusterProfiler
... `as.data.frame` also works for `clusterProfiler`'s `GSEA` output. ...
written 3 months ago by Guangchuang Yu2.0k
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Comment: C: Difference between ape::root, ggtree::reroot and phytools::reroot in R
... currently `ggtree::reroot` call `phytools::reroot` by specifying the position at the middle of the edge. ...
written 4 months ago by Guangchuang Yu2.0k
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366
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Comment: C: mgeneSim function in GOSemSim package: error: r in go_matrix[gos[[i]], gos[[j]]]
... in GOSemSim v>=2.6.1, `mgeneSim` will always output a matrix. ``` > similarity_matrix 3600 3600 0.189 ``` ...
written 4 months ago by Guangchuang Yu2.0k
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Comment: C: mgeneSim function in GOSemSim package: error: r in go_matrix[gos[[i]], gos[[j]]]
... By design, all the NA columns and rows will be removed. This is why the output is 1. As you only have 1 GO term and the similarity of a GO term to itself is always 1 using Wang's method. ...
written 4 months ago by Guangchuang Yu2.0k

Latest awards to Guangchuang Yu

Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: GO Enrichment Analysis representation
Scholar 8 weeks ago, created an answer that has been accepted. For A: R:Cannot install snpStats packages
Scholar 8 weeks ago, created an answer that has been accepted. For A: How to filter genes in R
Scholar 3 months ago, created an answer that has been accepted. For A: R:Cannot install snpStats packages
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: GO Enrichment Analysis representation
Appreciated 5 months ago, created a post with more than 5 votes. For ggtree: phylogenetic tree visualization and annotation
Popular Question 7 months ago, created a question with more than 1,000 views. For ggtree: phylogenetic tree visualization and annotation
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: GO Enrichment Analysis representation
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: GO Enrichment Analysis representation
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Get All The Genes In A Pathway (E.G. Kegg)
Scholar 10 months ago, created an answer that has been accepted. For A: specific string extraction use excel, R or Python
Popular Question 12 months ago, created a question with more than 1,000 views. For ggtree: phylogenetic tree visualization and annotation
Teacher 14 months ago, created an answer with at least 3 up-votes. For A: specific string extraction use excel, R or Python
Popular Question 16 months ago, created a question with more than 1,000 views. For ggtree: phylogenetic tree visualization and annotation
Scholar 17 months ago, created an answer that has been accepted. For A: specific string extraction use excel, R or Python
Appreciated 19 months ago, created a post with more than 5 votes. For A: specific string extraction use excel, R or Python
Popular Question 20 months ago, created a question with more than 1,000 views. For clusterProfiler: an R package for comparing biological themes among gene clusters
Popular Question 22 months ago, created a question with more than 1,000 views. For ggtree: phylogenetic tree visualization and annotation
Scholar 23 months ago, created an answer that has been accepted. For A: specific string extraction use excel, R or Python
Teacher 23 months ago, created an answer with at least 3 up-votes. For A: specific string extraction use excel, R or Python
Scholar 2.0 years ago, created an answer that has been accepted. For A: specific string extraction use excel, R or Python
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: specific string extraction use excel, R or Python
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: specific string extraction use excel, R or Python
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: specific string extraction use excel, R or Python

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