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89 results • Page
1 of 2
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Views
Votes
Replies
0
votes
0
replies
14
views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
Seurat
10X
scRNAseq
read10x
singlecell
1 hour ago by
ev97
▴ 20
0
votes
0
replies
26
views
GO analysis: Indicate genes corresponding to the pathway
GeneOntoloy
GO
R
2 hours ago by
sooni
▴ 20
0
votes
1
reply
36
views
How to hide label in layout file of MCscan (python version)
MCscan
2 hours ago by
jinyi
• 0
0
votes
0
replies
27
views
ENCORI or starBase : ceRNA data retrieval using Web API and curl
ceRNA
ENCORI
curl
microRNA
starBase
3 hours ago by
V_Vibes
• 0
0
votes
0
replies
32
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
confounding
3 hours ago by
JorgeVallejo
▴ 20
0
votes
0
replies
42
views
transcriptome annotation
annotation
transcriptome
cone
trinity
snails
conus
genome
3 hours ago by
Asim Bin Arshad
• 0
0
votes
4
replies
112
views
Why most genes have high padj values
deg
padj
bulkRNA
2 hours ago by
mnx0723
• 0
0
votes
1
reply
63
views
How to find identical sequences in genome fasta file (by Python or any possible program) ?
fasta
identical
sequences.
updated 5 hours ago by
Pierre Lindenbaum
161k • written 5 hours ago by
Sony
▴ 10
0
votes
1
reply
72
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
updated 5 hours ago by
ATpoint
82k • written 7 hours ago by
Pegasus
▴ 100
0
votes
1
reply
82
views
PCA Visualization error in R - arguments imply differing number of rows
SNPs
PCA
GBS
LINUX
r
updated 3 hours ago by
zx8754
11k • written 8 hours ago by
Ali
• 0
0
votes
1
reply
70
views
Error in using BioSampleParser tool: subscript out of bounds
R
updated 3 hours ago by
marco.barr
▴ 130 • written 10 hours ago by
Mohamed Samir
▴ 20
0
votes
4
replies
142
views
GO analysis: p-value range
GO
R
updated 1 hour ago by
Matthias Zepper
4.6k • written 11 hours ago by
sooni
▴ 20
0
votes
0
replies
64
views
Challenges of Affymetrix probe IDs for grouping similar genes to calculate their mean
R
Mean
Affymetrix
Probes
Grouping
13 hours ago by
Maryam
• 0
0
votes
4
replies
281
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
rna-seq
14 hours ago by
Bibi
• 0
0
votes
0
replies
78
views
handling bio replicates for chromHMM
replicates
chromHMM
18 hours ago by
Hasan_Daaboul
• 0
0
votes
0
replies
68
views
Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell
communication
ligand-receptor
self-regulation
18 hours ago by
DGTool
▴ 20
0
votes
0
replies
89
views
problems in installing rDock
rDock
make
Installation
Error
1 day ago by
Rodolfo Adrián
• 0
1
vote
1
reply
308
views
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
CIBERSORTx
cibersort
error
RNA-Seq
deconvolution
updated 1 day ago by
nguyenn6
• 0 • written 3 months ago by
star
▴ 10
0
votes
0
replies
111
views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
R
updated 1 day ago by
Pierre Lindenbaum
161k • written 1 day ago by
Mohamed Samir
▴ 20
0
votes
0
replies
116
views
Tera-scale metagenomic coassembly tool
co-assembly
Metagenomics
1 day ago by
Moinuddin
• 0
0
votes
1
reply
156
views
Broad and Narrow peaks
ATAC
ChIP
seq
updated 1 day ago by
ATpoint
82k • written 1 day ago by
Jacek
▴ 20
0
votes
0
replies
122
views
How can i use ESM-1v ?
VEP
ESM-1v
2 days ago by
Meto
• 0
0
votes
0
replies
130
views
Cell type annotation mixed with other type cells
cell
annotation.
updated 2 days ago by
GenoMax
142k • written 2 days ago by
Long
• 0
0
votes
0
replies
128
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
2 days ago by
kilcdincer
▴ 10
0
votes
0
replies
150
views
genomic region of transcription factor
search
HOMER
motif
2 days ago by
qudrat.nii
▴ 10
1
vote
5
replies
360
views
Reconstruction of locus, order contigs
contigs
cluster
alignment
locus
updated 2 days ago by
dthorbur
★ 2.0k • written 3 days ago by
BATMAN
• 0
0
votes
6
replies
349
views
ComplexHeatmap - How to change fontsize of rowAnnotation
ComplexHeatmap
2 days ago by
hannes.bongartz
• 0
0
votes
0
replies
135
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 2 days ago by
GenoMax
142k • written 2 days ago by
yura.grabovska
▴ 90
1
vote
1
reply
194
views
constructing pangenome through psvcp
psvcp
pangenome
1 day ago by
analyst
▴ 50
0
votes
3
replies
260
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
updated 5 hours ago by
nd48
▴ 20 • written 3 days ago by
Umer
▴ 50
0
votes
2
replies
247
views
How to generate table_annovar from VCF input?
vcf
annovar
updated 3 days ago by
Pierre Lindenbaum
161k • written 3 days ago by
melissachua90
▴ 70
0
votes
0
replies
133
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
3 days ago by
Varsha
• 0
0
votes
1
reply
407
views
solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* error: could not open input file /geneInfo.tab #2142
STAR
updated 3 days ago by
GenoMax
142k • written 3 days ago by
huxiangyulove
• 0
0
votes
0
replies
151
views
Help interpreting KEGG module definitions for converting to NetworkX graph
definition
kegg
module
database
genomics
3 days ago by
O.rka
▴ 720
0
votes
4
replies
339
views
Merge clusters in Seurat UMAP
seurat
umap
3 days ago by
kilcdincer
▴ 10
0
votes
0
replies
158
views
Use of ichor CNA
Dog
CNA
genome
3 days ago by
sainavyav22
• 0
2
votes
2
replies
275
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 3 days ago by
Ram
43k • written 3 days ago by
txema.heredia
▴ 130
0
votes
0
replies
160
views
Error when running create-maf-vcf at convertGVCFToHVCFForChrom step - PHGv2
PHG
pangenome
PHG_v2
3 days ago by
Jsarria.EEAD
• 0
0
votes
1
reply
213
views
How can I calculate the OS of each patient?
overall-survival
updated 3 days ago by
ATpoint
82k • written 3 days ago by
Pedro
• 0
0
votes
0
replies
152
views
cat-bgen fail
bgenix
updated 3 days ago by
Ram
43k • written 3 days ago by
lambard
• 0
1
vote
1
reply
202
views
API kegg - IndexError: list index out of range
kegg
API
updated 3 days ago by
Nyksubuz
▴ 20 • written 4 days ago by
mirwa.zidi93
• 0
0
votes
0
replies
142
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
4 days ago by
ebertomeup
• 0
0
votes
3
replies
280
views
Sam file Header problem
Sam
Header
problem
file
updated 3 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
saifulislam99121
• 0
0
votes
0
replies
147
views
select set of intervals that cover a genomic region
GRanges
bed
4 days ago by
ntsopoul
▴ 60
0
votes
2
replies
212
views
BiomartException: Query ERROR for existing dataset in BioMart
biomart
ensembl
wheat
python
pybiomart
9 hours ago by
Luqman
• 0
0
votes
4
replies
285
views
how to treat the replicates while performing WGCNA
clustering
WGCNA
replicates
2 days ago by
mavy
▴ 10
0
votes
1
reply
178
views
What's next after GATK variant calling pipeline?
GATK
pipeline
figures
DNA-seq
updated 4 days ago by
Michael
54k • written 4 days ago by
mgranada3
▴ 30
0
votes
1
reply
157
views
Add line under stat test
stats
R
updated 3 days ago by
Nyksubuz
▴ 20 • written 4 days ago by
Ghada
• 0
0
votes
0
replies
114
views
DOCK6 installation on MacOS M1
installation
troubleshooting
DOCK6
updated 4 days ago by
GenoMax
142k • written 4 days ago by
Rodolfo Adrián
• 0
1
vote
16
replies
753
views
Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NULL > pointer.
blast
ncbi
updated 1 day ago by
GenoMax
142k • written 4 days ago by
hophuquy0944
• 0
89 results • Page
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Recent Replies
Comment: GATK Structural Variants Pipeline - Steps
by
DGTool
▴ 20
If it is just the tools that they used which you are looking for, the first link in the overview section of that page leads to the followin…
Comment: GO analysis: p-value range
by
Matthias Zepper
4.6k
It is just a warning that you add a new scale to a ggplot2 plot, that already has an existing one, which will get replaced. Nothing to worr…
Comment: GO analysis: p-value range
by
marco.barr
▴ 130
If you write me the code you used I can help you more
Comment: GO analysis: p-value range
by
sooni
▴ 20
When I run the code, the following message appears: Scale for y is already present. Adding another scale for y, which will replace…
Comment: Why most genes have high padj values
by
mnx0723
• 0
In the case of other samples, the total number of genes is at least 3,000 more than that one, but it seems to be a relatively small number.…
Comment: How to hide label in layout file of MCscan (python version)
by
jinyi
• 0
Command line is as follows: python -m jcvi.graphics.synteny Cs.Cm.i1.blocks Cs_Cm.bed layout2.txt
Comment: Add stats to the plot
by
marco.barr
▴ 130
Thank you, it seems to be clearer. Your Condition already has two factorial levels. You can replace these names in groups 1 and 2. da…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
marco.barr
▴ 130
Hi, I also had the same problem. If you check its github page there have been no releases for many years and these errors cannot be fixed. …
Comment: Add stats to the plot
by
Ghada
• 0
Thanks, thats really helpful ![enter image description here][1] ![enter image description here][2] [1]: /media/images/0470f3dc-5945-…
Comment: PCA Visualization error in R
by
marco.barr
▴ 130
SNPRelate is an R package that is able to read from VCF files directly and perform PCA and IBD/IBS. See the documentation for details in Bi…
Comment: Why most genes have high padj values
by
ATpoint
82k
788 differential genes is a lot. What is the problem?
Comment: Why most genes have high padj values
by
mnx0723
• 0
Sorry, I made edits.
Comment: Why most genes have high padj values
by
Pierre Lindenbaum
161k
Please do not paste screenshots of plain text content, it is counterproductive. You can copy paste the content directly here (using the cod…
Comment: GO analysis: p-value range
by
marco.barr
▴ 130
Try adding: `scale_y_continuous(breaks=seq(0, max_count, by=0.05))`
Comment: Functional enrichment analysis for unique gene IDs
by
ATpoint
82k
If these genes do not have a symbol then it is utterly unlikely that anyone has looked at their function. I would get their Ensembl IDs and…
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