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Showing :
recount3
•
reset
0
votes
0
replies
133
views
Recount3 error downloading data
recount3
recount
7 weeks ago
Max Bone
• 0
1
vote
1
reply
162
views
Transcript level expression for CCLE
recount3
recount
CCLE
updated 8 weeks ago by
Leonardo Collado Torres
★ 1.0k • written 8 weeks ago by
António Miguel de Jesus Domingues
▴ 490
0
votes
2
replies
471
views
TCGA counts to TPM from recount3 do not seem to right
recount3
TCGA
RNASeq
updated 4 months ago by
Leonardo Collado Torres
★ 1.0k • written 5 months ago by
tangming2005
▴ 190
0
votes
2
replies
464
views
recount3 monorail pipeline version
recount3
5 months ago • updated 3 months ago
Lorenzo
• 0
0
votes
2
replies
465
views
Recount3: PCR duplicates
pcrduplicates
recount3
multimappingreads
updated 9 months ago by
ivanrebecca230
• 0 • written 10 months ago by
seline.natalie
• 0
0
votes
3
replies
1.5k
views
Recount3 error with default "recount3_url" option
recount3
updated 10 months ago by
Leonardo Collado Torres
★ 1.0k • written 16 months ago by
Cornwell, Adam
▴ 110
0
votes
2
replies
747
views
Recount3 data download problem
recount
recount3
updated 10 months ago by
Leonardo Collado Torres
★ 1.0k • written 15 months ago by
franceschini.gianmarco
• 0
2
votes
6
replies
1.2k
views
Unable to load data from duffel.rail
recount
recountWorkflow
recount3
updated 10 months ago by
Leonardo Collado Torres
★ 1.0k • written 15 months ago by
Max Bone
• 0
2
votes
11
replies
1.5k
views
Not able to download recount3 data
recount3
updated 10 months ago by
Leonardo Collado Torres
★ 1.0k • written 15 months ago by
Niveditha
▴ 20
0
votes
2
replies
636
views
Cannot download data from IDIES links
recount
recountWorkflow
recount3
updated 10 months ago by
Leonardo Collado Torres
★ 1.0k • written 15 months ago by
dml
• 0
1
vote
3
replies
930
views
Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2
recount
GTEx
TCGA
recount3
updated 10 months ago by
ATpoint
★ 4.0k • written 11 months ago by
David
▴ 20
0
votes
1
reply
531
views
Recount3 data correspond to TCGA data
recount3
updated 9 months ago by
seline.natalie
• 0 • written 11 months ago by
kevin lee
• 0
2
votes
3
replies
712
views
BigWig files provided by recount3
recount3
updated 12 months ago by
Leonardo Collado Torres
★ 1.0k • written 12 months ago by
mario.keller.1988
▴ 20
4
votes
6
replies
885
views
recount 3 protect read length metadata
recountWorkflow
recount3
updated 14 months ago by
Leonardo Collado Torres
★ 1.0k • written 15 months ago by
soever
▴ 20
1
vote
1
reply
703
views
searching study metadata in recount3
recount3
updated 17 months ago by
Leonardo Collado Torres
★ 1.0k • written 17 months ago by
andrew.su
▴ 10
0
votes
1
reply
661
views
recount3 transform_counts vs compute_read_counts
recount3
updated 19 months ago by
Leonardo Collado Torres
★ 1.0k • written 19 months ago by
fdelillo
• 0
2
votes
2
replies
1.8k
views
Create TPM gene tables/dataframe from ReCount3
recount3
TCGA
GTEx
DESeq2
22 months ago
David
▴ 20
10
votes
11
replies
2.2k
views
Counts from recount3 for DESeq2 analysis
recount3
DESeq2
updated 19 months ago by
Leonardo Collado Torres
★ 1.0k • written 23 months ago by
william.benit
▴ 10
0
votes
2
replies
860
views
Missing sample in recount3 data
recount3
2.0 years ago • updated 23 months ago
alex.dietrich
• 0
0
votes
1
reply
826
views
Retrieve the read counts per transcript instead of per gene
recount3
updated 24 months ago by
Leonardo Collado Torres
★ 1.0k • written 2.0 years ago by
oligoelemento
▴ 10
11
votes
8
replies
2.1k
views
Error when downloading data with recount3.
recount3
updated 24 months ago by
chris.wilks
▴ 70 • written 3.4 years ago by
Zach Brehm
▴ 20
1
vote
1
reply
1.0k
views
recount3 - download bigwig files for TCGA data
recount3
recount
TCGA
updated 2.0 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.0 years ago by
Xuebing
▴ 10
0
votes
1
reply
626
views
Sample tissue annotation
recount3
updated 2.1 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.2 years ago by
M.M.M.M.
• 0
0
votes
1
reply
820
views
Distinguishing between single cell and bulk data in recount3 study explorer
recount3
updated 2.1 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.3 years ago by
kstachelek
• 0
0
votes
2
replies
1.4k
views
Get read counts for TCGA samples via recount3
recount3
2.4 years ago • updated 2.3 years ago
mario.keller.1988
▴ 20
2
votes
2
replies
1.1k
views
[recount3] Merge gene counts tables from multiple projects (SRP)
recount3
recountWorkflow
updated 2.4 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.5 years ago by
António Miguel de Jesus Domingues
▴ 490
0
votes
1
reply
764
views
Different read support for splice junctions using snapcount and recount3
recount3
snapcount
updated 2.4 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.5 years ago by
mario.keller.1988
▴ 20
2
votes
5
replies
1.2k
views
Downloading count matrix for full recount3 dataset
recount3
updated 10 days ago by
Leonardo Collado Torres
★ 1.0k • written 2.7 years ago by
Ben
• 0
0
votes
2
replies
1.0k
views
recount3: advice for working with an unannotated genes
recount3
updated 2.4 years ago by
devorah.fialkoff
• 0 • written 2.8 years ago by
MakeTheBrain
• 0
1
vote
1
reply
1.6k
views
Correlation analyses on TCGA data
RNA-seq
Normalization
edgeR
recount3
updated 2.8 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.8 years ago by
mario.keller.1988
▴ 20
0
votes
1
reply
1.1k
views
Using recount data to calculate Intron retention
snapcount
recount3
recount
updated 3.0 years ago by
Leonardo Collado Torres
★ 1.0k • written 3.0 years ago by
Mariela Cortés López
• 0
31 results • Page
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Recent ...
Replies
Comment: Doing comparison of RNA-seq data using EdgeR
by
Michael Love
41k
Just to clarify, when I originally posted the title and tags had listed "DESeq2" and then the post was changed after my answer was added. …
Comment: fgsea fork
by
shepherl
3.8k
Not quite sure what you mean by clone or fork the package on latest version of R. Bioconductor runs all builds on the latest version of R.…
Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
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
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
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
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