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Showing :
tximportData
•
reset
2
votes
9
replies
595
views
Importing RSEM processed data already formatted as a summarized experiment into DESeq2
tximport
tximportData
DESeq2
11 weeks ago • updated 10 weeks ago
Ndimensional
▴ 20
0
votes
2
replies
288
views
tximport error in reading salmon output files?
tximport
tximportData
3 months ago
barrypraveen
• 0
2
votes
3
replies
743
views
Error while reading rsem files in tximport
DESeq2
tximport
rsem
RNASeq
tximportData
9 months ago
mohammedtoufiq91
▴ 10
3
votes
3
replies
547
views
What is the correct way to import transcript abundances from 3' Quantseq results that calculated by kallisto?
tximport
tximportData
Quantseq
kallisto
11 months ago • updated 10 months ago
duhwa.lee
• 0
0
votes
4
replies
728
views
Alternative for wininet method in tximeta
DESeq2
tximport
tximportData
tximeta
14 months ago
uhlkatie
• 0
2
votes
3
replies
716
views
Import RSEM output without sample data
DESeq2
tximportData
tximport
updated 19 months ago by
Michael Love
40k • written 19 months ago by
Luisa
• 0
0
votes
3
replies
679
views
tximport fails when RSEM output options produce files with additional columns?
DESeq2
tximportData
tximpor
updated 2.2 years ago by
Michael Love
40k • written 2.2 years ago by
Alexander
• 0
0
votes
1
reply
687
views
Multi-factor Analysis in DeSEQ2
tximport
R
tximportData
RNASeq
DESeq2
updated 2.3 years ago by
Michael Love
40k • written 2.3 years ago by
pthom010
• 0
0
votes
7
replies
1.4k
views
Problem with Tximport
tximportData
tximport
2.6 years ago
agoesmartini
• 0
0
votes
1
reply
759
views
How to use tx import on output of abundance file
tximportData
tximport
updated 2.9 years ago by
Kevin Blighe
3.8k • written 2.9 years ago by
Julie
• 0
0
votes
4
replies
811
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 3.4 years ago by
Michael Love
40k • written 3.4 years ago by
slouis
• 0
1
vote
2
replies
868
views
What is the expected location of bootstrap samples relative to quant.sf file ?
tximport
tximportdata
salmon
4.9 years ago
fcuy047
• 0
1
vote
2
replies
945
views
trouble importing data for DEseq2 workflow
deseq2
tximport
tximportdata
pasilla
Tutorial
updated 5.0 years ago by
Michael Love
40k • written 5.0 years ago by
Stanley Yang
• 0
1
vote
8
replies
30k
views
How to create tx2gene.gencode.v27.csv
tximportdata
updated 5.2 years ago by
Michael Love
40k • written 5.2 years ago by
mmokrejs
• 0
2
votes
6
replies
1.3k
views
[DESeq2] Different results from tutorial
deseq2
tximportdata
tximport
updated 5.3 years ago by
Michael Love
40k • written 5.3 years ago by
changhan1110
• 0
0
votes
1
reply
2.0k
views
could not find function "tximport"
tximportdata
updated 5.6 years ago by
Gordon Smyth
48k • written 5.6 years ago by
s.corley
▴ 30
0
votes
9
replies
3.2k
views
Upgrade bioconductor 3.2 to 3.3
bioclIte
tximportData
updated 5.7 years ago by
hauken_heyken
▴ 80 • written 7.2 years ago by
jarod_v6@libero.it
▴ 40
0
votes
3
replies
12k
views
Problem installing tximportData
tximportdata
6.5 years ago
elg
• 0
3
votes
5
replies
2.4k
views
txImport: a gene seems missing from the sample data
txImportData
txImport
updated 2.7 years ago by
James W. MacDonald
63k • written 6.5 years ago by
alexlok
• 0
0
votes
1
reply
1.5k
views
How to remove genes with 0 counts in tximport?
tximport
deseq
tximportdata
deseq2
updated 6.6 years ago by
Michael Love
40k • written 6.6 years ago by
Peter Alto
▴ 10
0
votes
7
replies
1.5k
views
PCA results different from th same sample but different counting method
deseq2
pca
tximportdata
htseqcounts
updated 7.2 years ago by
Michael Love
40k • written 7.2 years ago by
jarod_v6@libero.it
▴ 40
21 results • Page
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Answer: ukb Chromosomal position information was converted into SNPS
by
James W. MacDonald
63k
In my work, we almost always convert RSIDs to chr:pos because the former is ambiguous and changing whereas the latter is not. Which is like…
Comment: T.fit function of maSigPro returns error message
by
hanna.g
• 0
Addition to the issue above: the T.fit function works only when choosing the step.method = "forward", for whatever reason. Maybe this clue …
Answer: Deseq2, enrichGO and ensembl ID
by
James W. MacDonald
63k
1. There isn't a keytype alternative. You need the gene IDs. 2. Convert the `rownames` of your 'se' object, or the `rownames` of your `D…
Comment: Doubts regarding Pathview
by
loyedbend2811
• 0
I thoroughly enjoyed reading your essay, and it was quite beneficial to me. Please join me in [monopoly online][1] if you have the time. …
Comment: ukb Chromosomal position information was converted into SNPS
by
wenbo
• 0
Hi, I downloaded uk biobank data, but I don't know how to use R to convert chromosome position information to rs
Votes
Answer: MDS plot edgeR
A: legend with gradient in ComplexHeatmap
Comment: comparing contrasts in edger/lima using makeContrasts function
Answer: comparing contrasts in edger/lima using makeContrasts function
Answer: Differential expression analysis with only FPKM matrix available from total newb
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