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tximportdata
•
reset
3
votes
3
replies
1.2k
views
What is the correct way to import transcript abundances from 3' Quantseq results that calculated by kallisto?
tximport
tximportData
Quantseq
kallisto
23 months ago • updated 22 months ago
duhwa.lee
• 0
3
votes
5
replies
2.8k
views
txImport: a gene seems missing from the sample data
txImportData
txImport
updated 3.7 years ago by
James W. MacDonald
67k • written 7.6 years ago by
alexlok
• 0
2
votes
6
replies
1.8k
views
[DESeq2] Different results from tutorial
deseq2
tximportdata
tximport
updated 6.3 years ago by
Michael Love
42k • written 6.3 years ago by
changhan1110
• 0
2
votes
3
replies
1.1k
views
Import RSEM output without sample data
DESeq2
tximportData
tximport
updated 2.6 years ago by
Michael Love
42k • written 2.6 years ago by
Luisa
• 0
2
votes
9
replies
1.6k
views
Importing RSEM processed data already formatted as a summarized experiment into DESeq2
tximport
tximportData
DESeq2
14 months ago
Ndimensional
▴ 20
2
votes
3
replies
1.5k
views
Error while reading rsem files in tximport
DESeq2
tximport
rsem
RNASeq
tximportData
21 months ago
mohammedtoufiq91
▴ 10
1
vote
2
replies
1.3k
views
trouble importing data for DEseq2 workflow
deseq2
tximport
tximportdata
pasilla
Tutorial
updated 6.0 years ago by
Michael Love
42k • written 6.0 years ago by
Stanley Yang
• 0
1
vote
2
replies
1.2k
views
What is the expected location of bootstrap samples relative to quant.sf file ?
tximport
tximportdata
salmon
5.9 years ago
fcuy047
• 0
1
vote
8
replies
34k
views
How to create tx2gene.gencode.v27.csv
tximportdata
updated 6.2 years ago by
Michael Love
42k • written 6.2 years ago by
mmokrejs
• 0
0
votes
1
reply
959
views
Multi-factor Analysis in DeSEQ2
tximport
R
tximportData
RNASeq
DESeq2
updated 3.3 years ago by
Michael Love
42k • written 3.3 years ago by
pthom010
• 0
0
votes
3
replies
1.1k
views
tximport fails when RSEM output options produce files with additional columns?
DESeq2
tximportData
tximpor
updated 3.2 years ago by
Michael Love
42k • written 3.2 years ago by
Alexander
• 0
0
votes
2
replies
841
views
tximport error in reading salmon output files?
tximport
tximportData
updated 7 months ago by
Matteo
• 0 • written 15 months ago by
barrypraveen
• 0
0
votes
4
replies
1.4k
views
Alternative for wininet method in tximeta
DESeq2
tximport
tximportData
tximeta
2.2 years ago
uhlkatie
• 0
0
votes
4
replies
496
views
Create count matrix from multible quant sf files from different directories
tximportData
tximport
salmon
3 months ago
JG13
• 0
0
votes
9
replies
3.7k
views
Upgrade bioconductor 3.2 to 3.3
bioclIte
tximportData
updated 6.7 years ago by
hauken_heyken
▴ 80 • written 8.2 years ago by
jarod_v6@libero.it
▴ 40
0
votes
7
replies
1.8k
views
PCA results different from th same sample but different counting method
deseq2
pca
tximportdata
htseqcounts
updated 8.2 years ago by
Michael Love
42k • written 8.2 years ago by
jarod_v6@libero.it
▴ 40
0
votes
1
reply
1.8k
views
How to remove genes with 0 counts in tximport?
tximport
deseq
tximportdata
deseq2
updated 7.6 years ago by
Michael Love
42k • written 7.6 years ago by
Peter Alto
▴ 10
0
votes
3
replies
14k
views
Problem installing tximportData
tximportdata
7.5 years ago
elg
• 0
0
votes
1
reply
2.6k
views
could not find function "tximport"
tximportdata
updated 6.6 years ago by
Gordon Smyth
51k • written 6.6 years ago by
s.corley
▴ 30
0
votes
4
replies
1.3k
views
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
updated 4.4 years ago by
Michael Love
42k • written 4.4 years ago by
slouis
• 0
0
votes
1
reply
1.0k
views
How to use tx import on output of abundance file
tximportData
tximport
updated 3.9 years ago by
Kevin Blighe
★ 4.0k • written 3.9 years ago by
Julie
• 0
0
votes
7
replies
1.9k
views
Problem with Tximport
tximportData
tximport
3.6 years ago
agoesmartini
• 0
22 results • Page
1 of 1
Recent ...
Replies
Comment: Question on performing ANOVA-like analysis using limma
by
Gordon Smyth
51k
What does `sampleid` represent? If you use duplicateCorrelation(), then the blocking factor should be subject, it isn't clear from your que…
Answer: Question on performing ANOVA-like analysis using limma
by
Gordon Smyth
51k
In time course experiments such as this, it is essential to account for baseline variability between subjects, so the second analysis given…
Comment: AffylmGUI does not start wit R 4.4.1
by
Gordon Smyth
51k
Glad to hear that you have figured it out. Your experience might help other people with limmaGUI or affylmGUI on MacOS as well.
Answer: rtracklayer accessing UCSC data table not working
by
James W. MacDonald
67k
The track argument is deprecated now, so you can omit it. ``` > tbl.rmsk <- getTable(ucscTableQuery(mySession, table = "rmsk", range = …
Answer: For feline genome
by
James W. MacDonald
67k
This support site is meant to help people with specific questions about using Bioconductor software. There is a [vignette for `ROntoTools`]…
Votes
Comment: AffylmGUI does not start wit R 4.4.1
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
Comment: Error in GOmeth function of missMethyl when EPICv2 annotation is used
Answer: unable to access Annotationhub latest record
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