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Showing :
recount3
•
reset
0
votes
0
replies
166
views
Recount3 error downloading data
recount3
recount
11 weeks ago
Max Bone
• 0
1
vote
1
reply
196
views
Transcript level expression for CCLE
recount3
recount
CCLE
updated 12 weeks ago by
Leonardo Collado Torres
★ 1.0k • written 12 weeks ago by
António Miguel de Jesus Domingues
▴ 490
0
votes
2
replies
519
views
TCGA counts to TPM from recount3 do not seem to right
recount3
TCGA
RNASeq
updated 5 months ago by
Leonardo Collado Torres
★ 1.0k • written 6 months ago by
tangming2005
▴ 190
0
votes
2
replies
510
views
recount3 monorail pipeline version
recount3
6 months ago • updated 4 months ago
Lorenzo
• 0
0
votes
2
replies
490
views
Recount3: PCR duplicates
pcrduplicates
recount3
multimappingreads
updated 10 months ago by
ivanrebecca230
• 0 • written 11 months ago by
seline.natalie
• 0
1
vote
3
replies
998
views
Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2
recount
GTEx
TCGA
recount3
updated 11 months ago by
ATpoint
★ 4.0k • written 11 months ago by
David
▴ 20
0
votes
1
reply
556
views
Recount3 data correspond to TCGA data
recount3
updated 10 months ago by
seline.natalie
• 0 • written 12 months ago by
kevin lee
• 0
2
votes
3
replies
753
views
BigWig files provided by recount3
recount3
updated 13 months ago by
Leonardo Collado Torres
★ 1.0k • written 13 months ago by
mario.keller.1988
▴ 20
0
votes
2
replies
676
views
Cannot download data from IDIES links
recount
recountWorkflow
recount3
updated 11 months ago by
Leonardo Collado Torres
★ 1.0k • written 16 months ago by
dml
• 0
2
votes
11
replies
1.5k
views
Not able to download recount3 data
recount3
updated 11 months ago by
Leonardo Collado Torres
★ 1.0k • written 16 months ago by
Niveditha
▴ 20
4
votes
6
replies
918
views
recount 3 protect read length metadata
recountWorkflow
recount3
updated 15 months ago by
Leonardo Collado Torres
★ 1.0k • written 16 months ago by
soever
▴ 20
0
votes
2
replies
786
views
Recount3 data download problem
recount
recount3
updated 11 months ago by
Leonardo Collado Torres
★ 1.0k • written 16 months ago by
franceschini.gianmarco
• 0
2
votes
6
replies
1.3k
views
Unable to load data from duffel.rail
recount
recountWorkflow
recount3
updated 11 months ago by
Leonardo Collado Torres
★ 1.0k • written 16 months ago by
Max Bone
• 0
0
votes
3
replies
1.5k
views
Recount3 error with default "recount3_url" option
recount3
updated 11 months ago by
Leonardo Collado Torres
★ 1.0k • written 17 months ago by
Cornwell, Adam
▴ 110
1
vote
1
reply
723
views
searching study metadata in recount3
recount3
updated 18 months ago by
Leonardo Collado Torres
★ 1.0k • written 18 months ago by
andrew.su
▴ 10
0
votes
1
reply
697
views
recount3 transform_counts vs compute_read_counts
recount3
updated 20 months ago by
Leonardo Collado Torres
★ 1.0k • written 20 months ago by
fdelillo
• 0
2
votes
2
replies
1.9k
views
Create TPM gene tables/dataframe from ReCount3
recount3
TCGA
GTEx
DESeq2
22 months ago
David
▴ 20
10
votes
11
replies
2.3k
views
Counts from recount3 for DESeq2 analysis
recount3
DESeq2
updated 20 months ago by
Leonardo Collado Torres
★ 1.0k • written 2.0 years ago by
william.benit
▴ 10
1
vote
1
reply
1.1k
views
recount3 - download bigwig files for TCGA data
recount3
recount
TCGA
updated 2.1 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.1 years ago by
Xuebing
▴ 10
0
votes
2
replies
882
views
Missing sample in recount3 data
recount3
2.1 years ago • updated 24 months ago
alex.dietrich
• 0
0
votes
1
reply
849
views
Retrieve the read counts per transcript instead of per gene
recount3
updated 2.1 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.1 years ago by
oligoelemento
▴ 10
0
votes
1
reply
640
views
Sample tissue annotation
recount3
updated 2.2 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.2 years ago by
M.M.M.M.
• 0
0
votes
1
reply
836
views
Distinguishing between single cell and bulk data in recount3 study explorer
recount3
updated 2.2 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.4 years ago by
kstachelek
• 0
0
votes
2
replies
1.5k
views
Get read counts for TCGA samples via recount3
recount3
2.5 years ago • updated 2.4 years ago
mario.keller.1988
▴ 20
0
votes
1
reply
781
views
Different read support for splice junctions using snapcount and recount3
recount3
snapcount
updated 2.5 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.5 years ago by
mario.keller.1988
▴ 20
2
votes
2
replies
1.1k
views
[recount3] Merge gene counts tables from multiple projects (SRP)
recount3
recountWorkflow
updated 2.5 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.6 years ago by
António Miguel de Jesus Domingues
▴ 490
2
votes
5
replies
1.3k
views
Downloading count matrix for full recount3 dataset
recount3
updated 5 weeks ago by
Leonardo Collado Torres
★ 1.0k • written 2.8 years ago by
Ben
• 0
0
votes
2
replies
1.1k
views
recount3: advice for working with an unannotated genes
recount3
updated 2.4 years ago by
devorah.fialkoff
• 0 • written 2.9 years ago by
MakeTheBrain
• 0
1
vote
1
reply
1.7k
views
Correlation analyses on TCGA data
RNA-seq
Normalization
edgeR
recount3
updated 2.9 years ago by
Leonardo Collado Torres
★ 1.0k • written 2.9 years ago by
mario.keller.1988
▴ 20
0
votes
1
reply
1.2k
views
Using recount data to calculate Intron retention
snapcount
recount3
recount
updated 3.1 years ago by
Leonardo Collado Torres
★ 1.0k • written 3.1 years ago by
Mariela Cortés López
• 0
11
votes
8
replies
2.1k
views
Error when downloading data with recount3.
recount3
updated 2.1 years ago by
chris.wilks
▴ 70 • written 3.5 years ago by
Zach Brehm
▴ 20
31 results • Page
1 of 1
Recent ...
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Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge
by
shuwangxinze1996
• 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough? Thank …
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
This comment helps.
Votes
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
Answer: How to retrieve gene ontology GO class from gene list?
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