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89 results • Page
1 of 2
Sort: Votes
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Views
Votes
Replies
5
votes
7
replies
523
views
RNA seq analysis
DESeq
RNA-seq
5 days ago by
Jacek
▴ 20
3
votes
3
replies
297
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 6 days ago by
Ram
43k • written 20 days ago by
Adyasha
• 0
2
votes
9
replies
1.1k
views
HGVS Nomenclature of Multiple Indels found in Cis
Nomenclature
HGVS
21 hours ago by
LauferVA
4.2k
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
1
vote
1
reply
194
views
constructing pangenome through psvcp
psvcp
pangenome
1 day ago by
analyst
▴ 50
1
vote
1
reply
151
views
sci-RNA-seq
Seurat
sci-RNA-seq
updated 5 days ago by
Ram
43k • written 5 days ago by
kilcdincer
▴ 10
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
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
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
1
vote
4
replies
360
views
Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene prediction.
augustus
annotation
assembly
genome
updated 5 days ago by
Juke34
8.6k • written 6 days ago by
Vijith
▴ 30
1
vote
2
replies
234
views
Why does assigning genes with biomart give me different values than using a transcripts_to_genes.txt file?
biomart
RNAseq
kallisto
3 days ago by
bioinfo
▴ 150
1
vote
2
replies
370
views
How to remove multiple batch effects from RNA-seq data before limma differential gene expression analysis?
ComBat-seq
limma
RNA-seq
removeBatchEffect
batch-effect
updated 6 days ago by
Ram
43k • written 7 days ago by
t.fortunato.asquini
• 0
1
vote
4
replies
338
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 2 days ago by
Joe
21k • written 11 days ago by
cput
• 0
1
vote
1
reply
192
views
Help with VG Toolkit: VCF Output is Empty
vg
updated 3 days ago by
Jordan M Eizenga
▴ 460 • written 14 days ago by
sarumonsus
▴ 10
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
0
votes
0
replies
115
views
Is there a real ground truth for CNV data?
CNV
5 days ago by
jennyp0706
• 0
0
votes
0
replies
98
views
NEURON, Brian2, NEST, or PyNN
NEST
NEURON
PyNN
Brian2
5 days ago by
brunofelicianodeomena
• 0
0
votes
0
replies
100
views
Why the shape of RCS is contradictory to the p value for nonlinearity.
RCS
ggplot2
ggplot
R
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Dude
• 0
0
votes
1
reply
151
views
Polish a large genome with Pilon
Pilon
Pacbio
Polish
Illumina
5 days ago by
sansan_96
▴ 90
0
votes
2
replies
195
views
Using Cutadapt to trim adapters from paired-end small RNA sequence data
trimming
adapters
cutadapt
sRNA-seq
smallRNA
5 days ago by
melissa.joubert
• 0
0
votes
0
replies
99
views
ReactomeGSA
ReactomeGSA
5 days ago by
Shaimaa Gamal
▴ 10
0
votes
3
replies
172
views
Problem with Calling Variants from RNA-Seq data
vcf
gatk
benchmark
giab
rna-seq
5 days ago by
Esraa
• 0
0
votes
0
replies
111
views
Is it okay to assemble my 12 metatranscriptome samples with Trinity separately?
trinity
metatranscriptome
4 days ago by
jway
• 0
0
votes
1
reply
141
views
Wrong ZYGOSITY by ensembl vep on DeepVariant vcf file
annotation
vcf
vep
zygosity
deepvariant
4 days ago by
asalimih
▴ 60
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
0
votes
9
replies
610
views
Using VEP annotation output as the input for a second VEP annotation
Annotation
VEP
VCF
4 days ago by
Arton
▴ 10
0
votes
5
replies
290
views
bbmerge (bbmap) ~ error with insert size file output
bbtools
bbmerge
bbmap
updated 4 days ago by
GenoMax
142k • written 5 days ago by
chrisk
• 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
0
replies
142
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
4 days ago by
ebertomeup
• 0
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
176
views
perseus software (version 1.5.5)
preseus
mass
spectrometry
data
updated 4 days ago by
DGTool
▴ 20 • written 5 days ago by
iqra
• 0
0
votes
1
reply
156
views
Seurat v5 and how to correctly integrate across multiple experiments
Seurat
scRNA
R
updated 4 days ago by
Papyrus
★ 2.9k • written 4 days ago by
yura.grabovska
▴ 90
0
votes
1
reply
153
views
Difference in number of reads when using duplex and simplex base calling with Dorado
base
calling
nanopore
simplex
dorado
duplex
updated 3 days ago by
GenoMax
142k • written 4 days ago by
Lélé
▴ 10
0
votes
0
replies
152
views
cat-bgen fail
bgenix
updated 3 days ago by
Ram
43k • written 3 days ago by
lambard
• 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
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
0
replies
158
views
Use of ichor CNA
Dog
CNA
genome
3 days ago by
sainavyav22
• 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
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
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
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
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
4
replies
339
views
Merge clusters in Seurat UMAP
seurat
umap
3 days ago by
kilcdincer
▴ 10
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
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
0
votes
0
replies
150
views
genomic region of transcription factor
search
HOMER
motif
2 days ago by
qudrat.nii
▴ 10
0
votes
0
replies
128
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
2 days ago by
kilcdincer
▴ 10
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
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
122
views
How can i use ESM-1v ?
VEP
ESM-1v
2 days ago by
Meto
• 0
89 results • Page
1 of 2
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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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