Showing : phylogenetic • reset
9
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6.7k
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News: new package `ggtree` in devel branch
ggtree phylogenetic News
updated 9.2 years ago by ▴ 10 • written 9.2 years ago by ★ 1.2k
1
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2
replies
1.3k
views
accounting for phylogenetic non-independence in differential expression analysis
edger differential expression phylogenetic comparative methods
updated 6.8 years ago by ★ 28k • written 6.8 years ago by ▴ 10
0
votes
1
reply
1.2k
views
R slow, using all physical memory and 20GB Virt
linux r phylogenetic computational biology
updated 8.8 years ago by 16k • written 8.8 years ago by • 0
0
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1
reply
1.5k
views
package ‘MAcroCAIC’ is not available (for R version 3.1.2)
phylogenetic MacroCAIC
updated 8.2 years ago by ★ 28k • written 8.2 years ago by • 0
0
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1
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1.0k
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How to draw phylogeny tree for long genomes? ('msa' taking much time)
msa phylogenetic
updated 7.4 years ago by ▴ 290 • written 7.4 years ago by ▴ 50
0
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1
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1.9k
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ggtree: time-scaled tree s
phylogenetic ggtree calibration fossils times-scale
updated 6.6 years ago by ★ 1.2k • written 6.7 years ago by • 0
0
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0
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781
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msa output formats for use down stream to create phylogenetic trees
R bioconductor phylogenetic
6.0 years ago cav3gh • 0
0
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1
reply
655
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
TreeSummarizedExperiment phylogenetic microbiome SummarizedExperiment
updated 19 months ago by 65k • written 19 months ago by • 0
0
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1
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3.6k
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ape - delete bootstrap values (node.labels) less than a certain value
ape bootstrap node phylogenetic tree
8.8 years ago wd ▴ 30
9 results • Page 1 of 1
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Answer: rlog transformation by Michael Love 41k
It is dependent on the other samples in the dataset.
Answer: ONT long-read RNA sequencing - data analysis options by Michael Love 41k
*"This worked really well for brain but has not work as well for lung as I get #N/A for many padj"* See the vignette for the cause of th…
Answer: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by Michael Love 41k
Starting from the very top, do you understand the error? You need to provide sample info that matches 1-to-1 the columns of the counts matr…
Answer: covariate with negative and positive values by Michael Love 41k
Not a problem. However, if the values are very large (eg 1e6) or very small (eg 1e-6), it's a good idea to center and scale the variable…
Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10
Usually I run `voomLmFit`, although in order to create the mean-variance trend plots for this particular post, I ran `voom`; I've checked -…
Votes
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
Using GRanges and IRanges to simply get all chromosome data
A: Using GRanges and IRanges to simply get all chromosome data
Comment: Reading huge bismark coverage files using bbseq::read.bismark
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