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9 results • Page
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31
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Facing problem with single cell rna seq annotation using singleR
annotation
singleR
scRNAseq
2 hours ago by
sc_analysis
• 0
5
votes
4
replies
5.8k
views
Attempt to set 'rownames' on an object with no dimensions
R
microbiome
spieceasi
updated 6 hours ago by
elbakri.fatimazahrae
• 0 • written 3.6 years ago by
ks.sholohova
▴ 30
0
votes
0
replies
45
views
News:
Online course: Population Genomic Inference from Low-Coverage Whole-Genome Sequencing Data
PopulationGenomics
GenotypeLikelihoods
Low-Coverage
ANGSD
8 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
83
views
How to add Ensembl ids after Pseudobulk analysis by DESeq2
Seurat
Pseudobulk
single-cell
DESeq2
scRNA
7 hours ago by
Sara
▴ 30
2
votes
11
replies
683
views
ComplexHeatmap - How to change fontsize of rowAnnotation
r
ComplexHeatmap
updated 1 hour ago by
Ram
44k • written 9 days ago by
hannes.bongartz
• 0
1
vote
5
replies
289
views
How to scrape BioMart data from https://sorfs.ugent.be/ website
BioMart
updated 4 hours ago by
Pierre Lindenbaum
162k • written 2 days ago by
QX
• 0
2
votes
5
replies
305
views
Harmony integration group.by.var parameter
single-cell
harmony
4 hours ago by
Picasa
▴ 640
3
votes
4
replies
300
views
Getting differential ChIP-seq peaks between conditions after calling consensus peaks
MAnorm
ChIP-seq
consensus
peaks
2 hours ago by
Alexandra
• 0
1
vote
10
replies
3.5k
views
Merging multiple samples in Seurat
scRNA-seq
snRNA-seq
RNA-seq
Seurat
updated 20 hours ago by
Picasa
▴ 640 • written 7 months ago by
AFP3
• 0
9 results • Page
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Recent Votes
Answer: How to scrape BioMart data from https://sorfs.ugent.be/ website
Low DESeq2 Sensivity on scRNA Pseudobulk Samples
DESEQ2: How can I convert ensembl gene id's to HGNC gene names.
Problem with Ensembl version identifiers after running DESeq2
Issues with adding gene name and entrez ID to DESeq2 result having Ensembl ID.
A: Looking for differential gene expression between treatment, within a specific cl
How to compare cell-type ratios in sc-RNA seq data?
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Recent Replies
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
Ram
44k
A small educational note: if an answer was helpful, you should upvote it; if the answer resolved your question, you should mark it as accep…
Comment: Getting differential ChIP-seq peaks between conditions after calling consensus p
by
Alexandra
• 0
Thank you for your response! Interesting paper.
Comment: How to scrape BioMart data from https://sorfs.ugent.be/ website
by
Pierre Lindenbaum
162k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: Harmony integration group.by.var parameter
by
Picasa
▴ 640
@jaredandrews07 If I integrate using Donor: ```R RunHarmony(seu_obj, group.by.vars = c("Donor_ID")) ``` Should I also normalize my data…
Comment: How to scrape BioMart data from https://sorfs.ugent.be/ website
by
QX
• 0
thank you so much!
Answer: Attempt to set 'rownames' on an object with no dimensions
by
elbakri.fatimazahrae
• 0
hello everyone, I got the same error for a function immuCellAI_new; result <- ImmuCellAI_new(countData = expr_data_log22, data_type = "rnas…
Comment: Merging multiple samples in Seurat
by
Picasa
▴ 640
did you split by sample or donor ?
Comment: Harmony integration group.by.var parameter
by
Picasa
▴ 640
For downstream analysis, after integration, my plan is to annotate each cluster/cell type and then perform a DGE analysis of KO versus WT f…
Comment: How to calculate cell type frequency between two groups in single cell data
by
Bastien Hervé
5.3k
That is correct
Answer: Setting a threshold on gene expression for subsetting (scRNA-seq)
by
ATpoint
82k
That depends on the data and the marker. Generally I would plot violins per cluster for the marker(s) and see whether one robustly overexpr…
Comment: Error when i use EVidenceModeler to do the genome annotation
by
peanut
• 0
thank you so much ,i get it
Comment: Number of non-ATCG nucleotides replaced by Salmon
by
Tonya S.
▴ 10
Oops, yes, that must be where they are coming from. For some reason, I was thinking the genome was just soft-masked. How embarrassing! Than…
Answer: Number of non-ATCG nucleotides replaced by Salmon
by
Rob
6.6k
If there are no other signs that anything is awry, I probably wouldn't worry about this. Is it possible that these non-canonical nucleotid…
Comment: Introducing NovaDemux, a Sequence Demultiplexer that Increases Yield and Salvage
by
Brian Bushnell
20k
I examined nine 10B runs and five 25B runs (we just started getting 25B flowcells a few months ago). I did not pay close attention but it …
Comment: Introducing NovaDemux, a Sequence Demultiplexer that Increases Yield and Salvage
by
GenoMax
142k
> I don't know how widespread these issues are outside of JGI. Very few small/medium sequencing centers likely have NovaSeq X. This is the…
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