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tximportData
•
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0
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196
views
Error: lexical error: invalid char in json text (alevin-seurat)
tximpo
tximportData
alevinQC
updated 8 weeks ago by
ATpoint
★ 4.8k • written 8 weeks ago by
ptlsugam
• 0
0
votes
1
reply
417
views
Need new version : tx2gene.gencode.v47.csv
tximportData
updated 3 months ago by
Guido Hooiveld
★ 4.1k • written 3 months ago by
gauravbcbp22
• 0
4
votes
5
replies
923
views
DESeq Input from Salmon + tximport/tximeta
tximportData
summarizeToGene
tximport
DESeq2
salmon
5 months ago
LuciaNhu
• 0
0
votes
4
replies
730
views
Create count matrix from multible quant sf files from different directories
tximportData
tximport
salmon
10 months ago
JG13
• 0
2
votes
9
replies
2.0k
views
Importing RSEM processed data already formatted as a summarized experiment into DESeq2
tximport
tximportData
DESeq2
21 months ago
Ndimensional
▴ 20
0
votes
2
replies
1.0k
views
tximport error in reading salmon output files?
tximport
tximportData
updated 14 months ago by
Matteo
• 0 • written 22 months ago by
barrypraveen
• 0
2
votes
3
replies
1.8k
views
Error while reading rsem files in tximport
DESeq2
tximport
rsem
RNASeq
tximportData
2.4 years ago
mohammedtoufiq91
▴ 10
3
votes
3
replies
1.5k
views
What is the correct way to import transcript abundances from 3' Quantseq results that calculated by kallisto?
tximport
tximportData
Quantseq
kallisto
2.5 years ago • updated 2.4 years ago
duhwa.lee
• 0
0
votes
4
replies
1.6k
views
Alternative for wininet method in tximeta
DESeq2
tximport
tximportData
tximeta
2.8 years ago
uhlkatie
• 0
2
votes
3
replies
1.3k
views
Import RSEM output without sample data
DESeq2
tximportData
tximport
updated 3.1 years ago by
Michael Love
43k • written 3.2 years ago by
Luisa
• 0
0
votes
3
replies
1.2k
views
tximport fails when RSEM output options produce files with additional columns?
DESeq2
tximportData
tximpor
updated 3.7 years ago by
Michael Love
43k • written 3.8 years ago by
Alexander
• 0
0
votes
1
reply
1.1k
views
Multi-factor Analysis in DeSEQ2
tximport
R
tximportData
RNASeq
DESeq2
updated 3.9 years ago by
Michael Love
43k • written 3.9 years ago by
pthom010
• 0
0
votes
7
replies
2.1k
views
Problem with Tximport
tximportData
tximport
4.2 years ago
agoesmartini
• 0
0
votes
1
reply
1.2k
views
How to use tx import on output of abundance file
tximportData
tximport
updated 4.4 years ago by
Kevin Blighe
★ 4.0k • written 4.4 years ago by
Julie
• 0
0
votes
4
replies
1.6k
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 5.0 years ago by
Michael Love
43k • written 5.0 years ago by
slouis
• 0
1
vote
2
replies
1.3k
views
What is the expected location of bootstrap samples relative to quant.sf file ?
tximport
tximportdata
salmon
6.5 years ago
fcuy047
• 0
1
vote
2
replies
1.4k
views
trouble importing data for DEseq2 workflow
deseq2
tximport
tximportdata
pasilla
Tutorial
updated 6.5 years ago by
Michael Love
43k • written 6.5 years ago by
Stanley Yang
• 0
1
vote
8
replies
37k
views
How to create tx2gene.gencode.v27.csv
tximportdata
updated 6.8 years ago by
Michael Love
43k • written 6.8 years ago by
mmokrejs
• 0
2
votes
6
replies
2.0k
views
[DESeq2] Different results from tutorial
deseq2
tximportdata
tximport
updated 6.9 years ago by
Michael Love
43k • written 6.9 years ago by
changhan1110
• 0
0
votes
1
reply
2.8k
views
could not find function "tximport"
tximportdata
updated 7.1 years ago by
Gordon Smyth
52k • written 7.1 years ago by
s.corley
▴ 30
0
votes
9
replies
3.9k
views
Upgrade bioconductor 3.2 to 3.3
bioclIte
tximportData
updated 7.2 years ago by
hauken_heyken
▴ 80 • written 8.8 years ago by
jarod_v6@libero.it
▴ 40
0
votes
3
replies
15k
views
Problem installing tximportData
tximportdata
8.1 years ago
elg
• 0
3
votes
5
replies
3.0k
views
txImport: a gene seems missing from the sample data
txImportData
txImport
updated 4.2 years ago by
James W. MacDonald
68k • written 8.1 years ago by
alexlok
• 0
1
vote
1
reply
2.0k
views
How to remove genes with 0 counts in tximport?
tximport
deseq
tximportdata
deseq2
updated 8.2 years ago by
Michael Love
43k • written 8.2 years ago by
Peter Alto
▴ 20
0
votes
7
replies
2.1k
views
PCA results different from th same sample but different counting method
deseq2
pca
tximportdata
htseqcounts
updated 8.8 years ago by
Michael Love
43k • written 8.8 years ago by
jarod_v6@libero.it
▴ 40
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Answer: fast apply on RleList
by
James W. MacDonald
68k
There is already a 'mean' function that will dispatch on an `RleList` that you can use. I don't have a long `RleList` in hand to test it on…
Answer: Custom CDF creation for HTA 2.0 array using GTF annotation
by
James W. MacDonald
68k
It doesn't appear that Manhong Dai is working at UM any longer, and the webpage appears to have fallen into disrepair (for example, the lin…
Comment: how to use `arrayWeightsQuick()`?
by
matthew
• 0
In the specific use-case I have in mind, `expression` is a simple `matrix` of log2 gene expression per sample, no missing values.
Comment: BiocParallel_1.40.1.tar.gz not available
by
Johan
• 0
It worked. Thanks :)
Comment: Model performance for spline modelling of RNA-seq timecourses in edgeR
by
skiaphrene
▴ 10
Dear Gordon, Thank you very much for your prompt reply. I agree with the limma/edgeR perspective of including all potentially explanatory…
Votes
Answer: BiocParallel_1.40.1.tar.gz not available
Modelling gene program dynamics across time with {lemur}
A: DESeq2 one group vs multiple groups comparison in presence of batch effect
Comment: BiocParallel_1.40.1.tar.gz not available
Comment: BiocParallel_1.40.1.tar.gz not available
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