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tximeta
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Which fasta files to use for tximeta makeLinkTxome
tximeta
DESeq2
9 weeks ago
JING
• 0
0
votes
1
reply
573
views
tximeta errors: couldn't find matching transcriptome, returning non-ranged SummarizedExperiment AND unable to find an inherited method for function '…
tximeta
updated 4 months ago by
Michael Love
41k • written 4 months ago by
kyliecode
• 0
1
vote
2
replies
506
views
AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta
AnnotationHub
AnnotationHubData
5 months ago
Thon
• 0
1
vote
2
replies
483
views
tximeta error with vroom
tximeta
vroom
5 months ago
Pufall, Miles A
▴ 30
0
votes
4
replies
691
views
Tximeta error in analysis of downloaded data
tximeta
11 months ago
真妃
• 0
1
vote
2
replies
567
views
summarizeToGene in tximeta causing vastly different results
DESeq2
deseq
txime
tximeta
updated 11 months ago by
Michael Love
41k • written 11 months ago by
akrunic
• 0
1
vote
3
replies
743
views
collapseReplicates error after tximeta
fishpond
tximeta
DESeq2
updated 6 months ago by
Michael Love
41k • written 13 months ago by
Rihards Saksis
• 0
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
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James W. MacDonald
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This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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