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Showing :
recount3
•
reset
0
votes
3
replies
434
views
Merging multi-fastq samples in recount3
recount3
written 5 weeks ago by
Charlotte Capitanchik
• 0
0
votes
4
replies
878
views
Recount3: PCR duplicates
pcrduplicates
recount3
multimappingreads
updated 7 weeks ago by
ATpoint
★ 4.4k • written 15 months ago by
seline.natalie
• 0
0
votes
1
reply
451
views
Recount3 error downloading data
recount3
recount
updated 3 months ago by
Leonardo Collado Torres
★ 1.1k • written 7 months ago by
Max Bone
• 0
4
votes
3
replies
514
views
recount3 problem downloading data from source sra
recount3
updated 3 months ago by
Leonardo Collado Torres
★ 1.1k • written 3 months ago by
PABLO ANTONIO
▴ 10
1
vote
1
reply
411
views
Transcript level expression for CCLE
recount3
recount
CCLE
updated 7 months ago by
Leonardo Collado Torres
★ 1.1k • written 7 months ago by
António Miguel de Jesus Domingues
▴ 510
0
votes
2
replies
762
views
TCGA counts to TPM from recount3 do not seem to right
recount3
TCGA
RNASeq
updated 10 months ago by
Leonardo Collado Torres
★ 1.1k • written 10 months ago by
tangming2005
▴ 200
0
votes
2
replies
774
views
recount3 monorail pipeline version
recount3
11 months ago • updated 9 months ago
Lorenzo
• 0
0
votes
3
replies
1.9k
views
Recount3 error with default "recount3_url" option
recount3
updated 16 months ago by
Leonardo Collado Torres
★ 1.1k • written 21 months ago by
Cornwell, Adam
▴ 110
0
votes
2
replies
1.0k
views
Recount3 data download problem
recount
recount3
updated 16 months ago by
Leonardo Collado Torres
★ 1.1k • written 21 months ago by
gamma.jian
• 0
2
votes
6
replies
1.6k
views
Unable to load data from duffel.rail
recount
recountWorkflow
recount3
updated 16 months ago by
Leonardo Collado Torres
★ 1.1k • written 21 months ago by
Max Bone
• 0
2
votes
11
replies
1.9k
views
Not able to download recount3 data
recount3
updated 16 months ago by
Leonardo Collado Torres
★ 1.1k • written 21 months ago by
Niveditha
▴ 20
0
votes
2
replies
909
views
Cannot download data from IDIES links
recount
recountWorkflow
recount3
updated 16 months ago by
Leonardo Collado Torres
★ 1.1k • written 21 months ago by
dml
• 0
1
vote
3
replies
1.3k
views
Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2
recount
GTEx
TCGA
recount3
updated 16 months ago by
ATpoint
★ 4.4k • written 16 months ago by
David
▴ 20
0
votes
1
reply
714
views
Recount3 data correspond to TCGA data
recount3
updated 15 months ago by
seline.natalie
• 0 • written 17 months ago by
kevin lee
• 0
2
votes
3
replies
1.0k
views
BigWig files provided by recount3
recount3
updated 18 months ago by
Leonardo Collado Torres
★ 1.1k • written 18 months ago by
mario.keller.1988
▴ 20
4
votes
6
replies
1.2k
views
recount 3 protect read length metadata
recountWorkflow
recount3
updated 19 months ago by
Leonardo Collado Torres
★ 1.1k • written 21 months ago by
soever
▴ 20
1
vote
1
reply
905
views
searching study metadata in recount3
recount3
updated 22 months ago by
Leonardo Collado Torres
★ 1.1k • written 23 months ago by
andrew.su
▴ 10
0
votes
1
reply
871
views
recount3 transform_counts vs compute_read_counts
recount3
updated 2.1 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.1 years ago by
fdelillo
• 0
2
votes
2
replies
2.3k
views
Create TPM gene tables/dataframe from ReCount3
recount3
TCGA
GTEx
DESeq2
2.3 years ago
David
▴ 20
10
votes
11
replies
2.8k
views
Counts from recount3 for DESeq2 analysis
recount3
DESeq2
updated 2.0 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.4 years ago by
william.benit
▴ 10
0
votes
2
replies
1.1k
views
Missing sample in recount3 data
recount3
2.5 years ago • updated 2.4 years ago
alex.dietrich
• 0
0
votes
1
reply
1.1k
views
Retrieve the read counts per transcript instead of per gene
recount3
updated 2.5 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.5 years ago by
oligoelemento
▴ 10
11
votes
8
replies
2.4k
views
Error when downloading data with recount3.
recount3
updated 2.5 years ago by
chris.wilks
▴ 70 • written 3.9 years ago by
Zach Brehm
▴ 20
1
vote
1
reply
1.3k
views
recount3 - download bigwig files for TCGA data
recount3
recount
TCGA
updated 2.5 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.5 years ago by
Xuebing
▴ 10
0
votes
1
reply
747
views
Sample tissue annotation
recount3
updated 2.5 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.6 years ago by
M.M.M.M.
• 0
0
votes
1
reply
961
views
Distinguishing between single cell and bulk data in recount3 study explorer
recount3
updated 2.5 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.8 years ago by
kstachelek
• 0
0
votes
2
replies
1.9k
views
Get read counts for TCGA samples via recount3
recount3
2.9 years ago • updated 2.8 years ago
mario.keller.1988
▴ 20
2
votes
2
replies
1.4k
views
[recount3] Merge gene counts tables from multiple projects (SRP)
recount3
recountWorkflow
updated 2.9 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.0 years ago by
António Miguel de Jesus Domingues
▴ 510
0
votes
1
reply
944
views
Different read support for splice junctions using snapcount and recount3
recount3
snapcount
updated 2.9 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.9 years ago by
mario.keller.1988
▴ 20
2
votes
5
replies
1.5k
views
Downloading count matrix for full recount3 dataset
recount3
updated 6 months ago by
Leonardo Collado Torres
★ 1.1k • written 3.2 years ago by
Ben
• 0
0
votes
2
replies
1.2k
views
recount3: advice for working with an unannotated genes
recount3
updated 2.8 years ago by
devorah.fialkoff
• 0 • written 3.3 years ago by
MakeTheBrain
• 0
1
vote
1
reply
1.8k
views
Correlation analyses on TCGA data
RNA-seq
Normalization
edgeR
recount3
updated 3.3 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.3 years ago by
mario.keller.1988
▴ 20
0
votes
1
reply
1.3k
views
Using recount data to calculate Intron retention
snapcount
recount3
recount
updated 3.5 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.5 years ago by
Mariela Cortés López
• 0
33 results • Page
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Comment: How to read OSCA book?
by
zr
• 0
Got it, that had really confused me a bit, thank you for your help!
Comment: How to use removeBatchEffect for removing effect of multiple confounding variabl
by
James W. MacDonald
67k
Please don't add questions onto a four-year old post. Instead, start a new one. If you want to reference the old post, that's fine.
Answer: How to use removeBatchEffect for removing effect of multiple confounding variabl
by
bioinformata
• 0
Is it feasible to remove batch effect with limma after variance stabilizing transformation of the gene expression , or is eough to use vst…
Comment: clusterProfiler: BgRatio N value does not match the size of the gene universe th
by
James W. MacDonald
67k
Hi Guido, It's that last filtering step. You are saying the NCBI Gene ID has to be unique AND the ontology has to be BP, which isn't what …
Comment: AffylmGUI does not start wit R 4.4.1
by
richardallenfriedmanbrooklyn
▴ 20
Gordon, I found out what went wrong. The problem was that the xquartz distribution for mac from cran did not include tcltk! I found that b…
Votes
Answer: How to read OSCA book?
Answer: How to read OSCA book?
DESeq2 design and contrasts with 2 drug-treated and one control group
Comment: clusterProfiler: BgRatio N value does not match the size of the gene universe th
Answer: Question: How to Set Up Contrasts for Case-Control Analysis in Limma While Adjus
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