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recount3
•
reset
0
votes
0
replies
130
views
Recount3 error downloading data
recount3
recount
7 weeks ago
Max Bone
• 0
1
vote
1
reply
158
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
464
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
462
views
recount3 monorail pipeline version
recount3
5 months ago • updated 3 months ago
Lorenzo
• 0
0
votes
2
replies
464
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
743
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
632
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
928
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 10 months ago by
David
▴ 20
0
votes
1
reply
530
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
711
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
879
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
702
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
660
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
858
views
Missing sample in recount3 data
recount3
2.0 years ago • updated 23 months ago
alex.dietrich
• 0
0
votes
1
reply
825
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
2.0k
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 24 months ago by
Leonardo Collado Torres
★ 1.0k • written 24 months ago by
Xuebing
▴ 10
0
votes
1
reply
625
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
819
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
762
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 2.3 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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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
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mercedeh.movassagh
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Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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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…
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This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
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James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
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
Answer: error in ChAMP loading file
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