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Showing top results for tag:
SingleCell
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10
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Job:
Bioinformatician at Turbine / Hungary
proteomics
cancerreserach
singlecell
python
r
32 minutes ago by
timea.volenter
• 0
4
votes
4
replies
169
views
How comes scRNAseq linear batch corrected data looks worst than before correction?
rescalebatches
regressbatches
singlecell
batch
20 hours ago by
Nadine
▴ 10
0
votes
0
replies
33
views
No peaks found in Signac's FindMarker
seurat
atac-seq
Signac
atac
singlecell
3 days ago by
ahmad mousavi
▴ 520
3
votes
4
replies
291
views
Expression of gene of interest across conditions in single-cell data
singlecell
scater
tpm
seurat
Rna-seq
4 days ago by
kz
• 0
0
votes
0
replies
43
views
Could it be risky to analyse cells that are negative after cell hashing on single cell RNA sequencing?
RNA-Seq
singlecell
R
Seurat
7 days ago by
charlesgwellem
• 0
4
votes
4
replies
262
views
Will mapping Read 1 in Single Cell 3' sequencing increase mapping accuracy or not?
singlecell
zUMI
mapping
3`sequencing
scruff
updated 17 days ago by
GenoMax
99k • written 17 days ago by
Zhilong Jia
★ 1.7k
3
votes
2
replies
186
views
Understanding Seurat Object
RNA-Seq
singlecell
Seurat
20 days ago by
patelk26
▴ 230
0
votes
2
replies
118
views
read10X ERROR Seurat
read10x
singlecell
rna
R
seurat
updated 5 weeks ago by
rpolicastro
5.1k • written 5 weeks ago by
GiuliaAC
▴ 10
0
votes
0
replies
133
views
News:
ONLINE training - Single-cell RNA-seq analysis with R/Bioconductor. 07-11 June
R
RNA-Seq
SingleCell
Bioconductor
News
9 weeks ago by
carlopecoraro2
★ 2.0k
3
votes
2
replies
204
views
cluster quality estimation in sc_RNA-seq
singlecell
RNA-Seq
10 weeks ago by
davide.pasini
▴ 10
1
vote
3
replies
160
views
Annotating peaks with genes
atac-seq
atac
multiome
singlecell
updated 3 months ago by
jared.andrews07
9.3k • written 3 months ago by
V
▴ 250
0
votes
0
replies
323
views
From 10x single cell data to a bulk analysis
dna-seq
singleCell
10x
copy number
cellranger
7 months ago by
noshadho
▴ 20
0
votes
2
replies
479
views
How to compare the human single cell RNA-seq clusters with mouse bulk RNA-seq
RNA-Seq
singleCell
R
sequencing
7 months ago by
saigro16
▴ 10
0
votes
0
replies
207
views
Cellranger cnv analysis bin size
cellranger
cellranger_dna
cnv
singlecell
8 months ago by
noshadho
▴ 20
14
votes
14
replies
3.5k
views
7 follow
Downloading paired end fastq from SRA
RNA-Seq
singlecell
SRA
updated 8 months ago by
Brunox13
▴ 30 • written 24 months ago by
t.t
▴ 40
7
votes
11
replies
3.2k
views
Plotting heatmap of Marker genes in each celltypes in Seurat
seurat
singlecell
heatmap
celltypes
updated 8 months ago by
jared.andrews07
9.3k • written 8 months ago by
David_emir
▴ 390
4
votes
2
replies
2.5k
views
Running scVelo on Seurat
RNA-Seq
velocity
singlecell
Seurat
updated 9 months ago by
Basil Khuder
▴ 30 • written 10 months ago by
V
▴ 250
1
vote
5
replies
794
views
pre-mRNA GTF reference for 10x
singlecellRNAseq
gtf
singlecell
velocity
RNA
updated 10 months ago by
piyushjo
▴ 560 • written 10 months ago by
V
▴ 250
4
votes
1
reply
814
views
Single cell Drop-Seq question
singlecell
updated 11 months ago by
Biostar
20 • written 2.8 years ago by
landscape95
▴ 180
2
votes
2
replies
1.7k
views
Tutorials: Trajectory analysis using Velocity
singlecell
10X
velocity
trajectory
12 months ago by
bioinforesearchquestions
▴ 280
3
votes
5
replies
3.7k
views
Marker genes for different cell types
singlecell
RNA
RNA-Seq
updated 14 months ago by
jrleary
▴ 170 • written 3.8 years ago by
halo22
▴ 250
5
votes
3
replies
385
views
SC-RNA Seq Analysis tutorials
Seurat
Analysis
Singlecell
SC
updated 17 months ago by
jared.andrews07
9.3k • written 17 months ago by
sambunga094
• 0
0
votes
0
replies
783
views
News:
Webinar: Mapping the single-cell atlas of the bone marrow microenvironment
webinar
RNA-Seq
next-gen
singlecell
News
20 months ago by
Jennifer Pham
▴ 420
0
votes
0
replies
1000
views
Subgrouping SIngle Cell in RNA-Seq Data Analysis
RNA-Seq
rna-seq
clustering
singlecell
3.2 years ago by
John
▴ 220
1
vote
0
replies
738
views
SingleCell RNaseq normalisation
singleCell
RNAseq
spike_in
normalisation
3.8 years ago by
nadia_boufaied
▴ 10
25 results • Page
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Recent Votes
Is the union of cDNA sequences the exome?
Answer: Filter contig fasta file by GC content
Comment: R command worked yesterday, but stalls today?
Answer: R command worked yesterday, but stalls today?
Comment: How to combine 2 incomplete GTF
Answer: comprehensive bacterial phylogenetic tree with edge lengths for all of RefSeq or
Comment: How can I Extract Transposable element from a new genome assembly?
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nilus1432
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Recent Replies
Comment: R - A bioinformatic analysis programming language for NGS
by
Ram
32k
Sure. I've been meaning to create a how-to on the super/subscript formatting. For super-script, you can use the `<sup> ... </sup>` HTML ele…
Comment: How to run SPAdes assembler with bam files?
by
GenoMax
99k
You should be able to use pipes to string those steps together samtools view -f 12 -F 256 aligned-sorted-deduplicated.bam | samtools s…
Comment: snap installation error
by
Gianluca
• 0
I know this is an old thread but if anyone has the same problem I prefer to write it here because it is one of the first results in google.…
Comment: how to select peaks at not transcribed genes
by
Lila M
▴ 910
That is my concern... this is why I asked in here :)
Comment: how to select peaks at not transcribed genes
by
jared.andrews07
9.3k
In that case, wouldn't you consider all peaks to be associated with transcription? Even if your 232 peaks are not associated with genes, th…
Answer: Filter contig fasta file by GC content
by
GenoMax
99k
Try the following. seqkit fx2tab --name --only-id --gc contigs.fa | awk -F "\t" '{if ($2 < 35) print $1}' | xargs -n 1 sh -c 'seqki…
Comment: how to select peaks at not transcribed genes
by
Lila M
▴ 910
indeed, my IP was for Pol2
Comment: R command worked yesterday, but stalls today?
by
dariober
12k
...besides, [wget](https://www.gnu.org/software/wget/manual/wget.html) has a `-c/--continue` option to resume the download of a partial fil…
Comment: how to select peaks at not transcribed genes
by
jared.andrews07
9.3k
What makes you think genes with a peak are transcribed while those without are not? Unless your IP was for Pol2, this is an overly simplist…
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴ 70
Thank you! I am going to try it :)
Comment: How to combine 2 incomplete GTF
by
GenoMax
99k
Please create a new environment when installing packages. That avoids conflicts. conda create -c bioconda -n agat agat conda acti…
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴ 70
Hi Juke, I am trying to install it and I can't. ![enter image description here][1] [1]: /media/images/bc08978b-10f7-4666-b385-57807b…
Comment: comprehensive bacterial phylogenetic tree with edge lengths for all of RefSeq or
by
cmo
▴ 70
I agree with you, Mensur, that the GTDB is arguably more reliable and comprehensive than NCBI. However, due to the relative greater longevi…
Comment: how to select peaks at not transcribed genes
by
Lila M
▴ 910
rigth, it is a ChIP seq analysis
Comment: how to select peaks at not transcribed genes
by
ATpoint
48k
Which type data are we talking about? What was the experiment? There are literally no details in this question right now. It the assay meas…
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