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How to use tx import on output of abundance file
tximportData tximport
9 weeks ago Julie • 0 • updated 9 weeks ago Kevin Blighe 2.3k
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4
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Having a hard time creating a Txi object from an existing Salmon output file to convert transcript file to gene id TPM
Salmon tximport tximportdata ensembl
9 months ago slouis • 0 • updated 9 months ago Michael Love 31k
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What is the expected location of bootstrap samples relative to quant.sf file ?
tximport tximportdata salmon
2.2 years ago fcuy047 • 0
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2
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trouble importing data for DEseq2 workflow
deseq2 tximport tximportdata pasilla Tutorial
2.3 years ago Stanley Yang • 0 • updated 2.3 years ago Michael Love 31k
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How to create tx2gene.gencode.v27.csv
tximportdata
2.6 years ago mmokrejs • 0 • updated 2.6 years ago Michael Love 31k
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6
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509
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[DESeq2] Different results from tutorial
deseq2 tximportdata tximport
2.7 years ago changhan1110 • 0 • updated 2.7 years ago Michael Love 31k
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686
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could not find function "tximport"
tximportdata
2.9 years ago s.corley • 30 • updated 2.9 years ago Gordon Smyth 41k
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Upgrade bioconductor 3.2 to 3.3
bioclIte tximportData
4.6 years ago jarod_v6@libero.it • 40 • updated 3.0 years ago hauken_heyken • 70
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Problem installing tximportData
tximportdata
3.8 years ago elg • 0
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1.3k
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txImport: a gene seems missing from the sample data
txImportData txImport
3.9 years ago alexlok • 0 • updated 3.9 years ago Michael Love 31k
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869
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How to remove genes with 0 counts in tximport?
tximport deseq tximportdata deseq2
3.9 years ago Peter Alto • 10 • updated 3.9 years ago Michael Love 31k
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PCA results different from th same sample but different counting method
deseq2 pca tximportdata htseqcounts
4.5 years ago jarod_v6@libero.it • 40 • updated 4.5 years ago Michael Love 31k
12 results • Page 1 of 1
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Answer: Limma help (creating design matrix) by James W. MacDonald 55k
There's no need to do the second line in your example. The limma package is quite happy to accept an `ExpressionSet` as input, so you don't…
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Thanks for the details. The error occurs at the following step: ``` ../libtool: line 7486: cd: -/: invalid option ``` and I think …
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Given that tissues are nested within dataset, and you are interested in looking at time differences within tissue, I'd recommend processing…
Comment: Normalization for two bulk RNA datasets with different library sizes by K. • 0
I would like to retrieve a list of target genes in all tissues after certain pathway activation to evaluate to what extent are the target g…
Answer: Normalization for two bulk RNA datasets with different library sizes by Michael Love 31k
What is the comparison of interest?
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Answer: Limma help (creating design matrix)
Comment: Normalization for two bulk RNA datasets with different library sizes
How to better design a Volcano plot
Replace a specific nucleotide sequence, at a specific position, with another in Biostrings
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