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Showing :
recount3
•
reset
0
votes
3
replies
551
views
Merging multi-fastq samples in recount3
recount3
written 4 months ago by
Charlotte Capitanchik
• 0
0
votes
4
replies
978
views
Recount3: PCR duplicates
pcrduplicates
recount3
multimappingreads
updated 5 months ago by
ATpoint
★ 4.6k • written 19 months ago by
seline.natalie
• 0
0
votes
1
reply
566
views
Recount3 error downloading data
recount3
recount
updated 6 months ago by
Leonardo Collado Torres
★ 1.1k • written 10 months ago by
Max Bone
• 0
4
votes
3
replies
677
views
recount3 problem downloading data from source sra
recount3
updated 7 months ago by
Leonardo Collado Torres
★ 1.1k • written 7 months ago by
PABLO ANTONIO
▴ 10
1
vote
1
reply
539
views
Transcript level expression for CCLE
recount3
recount
CCLE
updated 11 months ago by
Leonardo Collado Torres
★ 1.1k • written 11 months ago by
António Miguel de Jesus Domingues
▴ 510
0
votes
2
replies
896
views
TCGA counts to TPM from recount3 do not seem to right
recount3
TCGA
RNASeq
updated 13 months ago by
Leonardo Collado Torres
★ 1.1k • written 14 months ago by
tangming2005
▴ 200
0
votes
2
replies
931
views
recount3 monorail pipeline version
recount3
15 months ago • updated 12 months ago
Lorenzo
• 0
0
votes
3
replies
2.0k
views
Recount3 error with default "recount3_url" option
recount3
updated 20 months ago by
Leonardo Collado Torres
★ 1.1k • written 2.1 years ago by
Cornwell, Adam
▴ 110
0
votes
2
replies
1.1k
views
Recount3 data download problem
recount
recount3
updated 20 months ago by
Leonardo Collado Torres
★ 1.1k • written 2.1 years ago by
gamma.jian
▴ 10
2
votes
6
replies
1.7k
views
Unable to load data from duffel.rail
recount
recountWorkflow
recount3
updated 20 months ago by
Leonardo Collado Torres
★ 1.1k • written 2.1 years ago by
Max Bone
• 0
2
votes
11
replies
2.0k
views
Not able to download recount3 data
recount3
updated 20 months ago by
Leonardo Collado Torres
★ 1.1k • written 2.0 years ago by
Niveditha
▴ 20
0
votes
2
replies
993
views
Cannot download data from IDIES links
recount
recountWorkflow
recount3
updated 20 months ago by
Leonardo Collado Torres
★ 1.1k • written 2.0 years ago by
dml
• 0
1
vote
3
replies
1.5k
views
Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2
recount
GTEx
TCGA
recount3
updated 20 months ago by
ATpoint
★ 4.6k • written 20 months ago by
David
▴ 20
0
votes
1
reply
803
views
Recount3 data correspond to TCGA data
recount3
updated 19 months ago by
seline.natalie
• 0 • written 20 months ago by
kevin lee
• 0
2
votes
3
replies
1.2k
views
BigWig files provided by recount3
recount3
updated 22 months ago by
Leonardo Collado Torres
★ 1.1k • written 22 months ago by
mario.keller.1988
▴ 20
4
votes
6
replies
1.3k
views
recount 3 protect read length metadata
recountWorkflow
recount3
updated 23 months ago by
Leonardo Collado Torres
★ 1.1k • written 2.0 years ago by
soever
▴ 20
1
vote
1
reply
1.0k
views
searching study metadata in recount3
recount3
updated 2.2 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.2 years ago by
andrew.su
▴ 10
0
votes
1
reply
1.0k
views
recount3 transform_counts vs compute_read_counts
recount3
updated 2.3 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.4 years ago by
fdelillo
• 0
2
votes
2
replies
2.5k
views
Create TPM gene tables/dataframe from ReCount3
recount3
TCGA
GTEx
DESeq2
2.6 years ago
David
▴ 20
10
votes
11
replies
3.1k
views
Counts from recount3 for DESeq2 analysis
recount3
DESeq2
updated 2.3 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.7 years ago by
william.benit
▴ 10
0
votes
2
replies
1.2k
views
Missing sample in recount3 data
recount3
2.8 years ago • updated 2.7 years ago
alex.dietrich
• 0
0
votes
1
reply
1.2k
views
Retrieve the read counts per transcript instead of per gene
recount3
updated 2.8 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.8 years ago by
oligoelemento
▴ 10
11
votes
8
replies
2.5k
views
Error when downloading data with recount3.
recount3
updated 2.8 years ago by
chris.wilks
▴ 70 • written 4.2 years ago by
Zach Brehm
▴ 20
1
vote
1
reply
1.5k
views
recount3 - download bigwig files for TCGA data
recount3
recount
TCGA
updated 2.8 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.8 years ago by
Xuebing
▴ 10
0
votes
1
reply
786
views
Sample tissue annotation
recount3
updated 2.8 years ago by
Leonardo Collado Torres
★ 1.1k • written 2.9 years ago by
M.M.M.M.
• 0
0
votes
1
reply
1.0k
views
Distinguishing between single cell and bulk data in recount3 study explorer
recount3
updated 2.8 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.1 years ago by
kstachelek
• 0
0
votes
2
replies
2.1k
views
Get read counts for TCGA samples via recount3
recount3
3.1 years ago
mario.keller.1988
▴ 20
2
votes
2
replies
1.6k
views
[recount3] Merge gene counts tables from multiple projects (SRP)
recount3
recountWorkflow
updated 3.2 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.2 years ago by
António Miguel de Jesus Domingues
▴ 510
0
votes
1
reply
1.0k
views
Different read support for splice junctions using snapcount and recount3
recount3
snapcount
updated 3.2 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.2 years ago by
mario.keller.1988
▴ 20
2
votes
5
replies
1.7k
views
Downloading count matrix for full recount3 dataset
recount3
updated 9 months ago by
Leonardo Collado Torres
★ 1.1k • written 3.5 years ago by
Ben
• 0
0
votes
2
replies
1.3k
views
recount3: advice for working with an unannotated genes
recount3
updated 3.1 years ago by
devorah.fialkoff
• 0 • written 3.6 years ago by
MakeTheBrain
• 0
1
vote
1
reply
2.0k
views
Correlation analyses on TCGA data
RNA-seq
Normalization
edgeR
recount3
updated 3.6 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.6 years ago by
mario.keller.1988
▴ 20
0
votes
1
reply
1.4k
views
Using recount data to calculate Intron retention
snapcount
recount3
recount
updated 3.8 years ago by
Leonardo Collado Torres
★ 1.1k • written 3.8 years ago by
Mariela Cortés López
• 0
33 results • Page
1 of 1
Recent ...
Replies
Answer: DESeq error: counts matrix should be numeric, currently it has mode: character
by
ATpoint
★ 4.6k
R thinks your data are characters (e.g. "1", "2", instead of 1, 2) so given that your `counts_data` indeed only contains counts, do: `mo…
Comment: Any tools to convert .gff to .gtf format
by
ControlF5
• 0
Yes, the Appsierra team recently built a tool to convert .gff to .gtf format. [ControlF5][1] is providing the best software testing service…
Comment: EuroBioC2024 abstract submission is open!
by
Alan Downey
• 0
EuroBioC2024 has opened its abstract submission process, presenting an exciting opportunity for researchers to contribute to groundbreaking…
Comment: ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
by
O'Brien
• 0
Consult the ChAMP.DMR documentation for more information on supported array types and expected data formats: https://bioconductor.org/packa…
Answer: combining raw counts and estimated counts
by
O'Brien
• 0
It is possible to combine raw counts from TCGA and estimated counts from GEO datasets (Kalisto pseudoalignment) while mitigating batch effe…
Votes
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
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