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1,000 results • Page
2 of 20
Sort: Rank
Rank
Views
Votes
Replies
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
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
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
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
99
views
ReactomeGSA
ReactomeGSA
5 days ago by
Shaimaa Gamal
▴ 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
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
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
0
replies
98
views
NEURON, Brian2, NEST, or PyNN
NEST
NEURON
PyNN
Brian2
5 days ago by
brunofelicianodeomena
• 0
0
votes
1
reply
151
views
Polish a large genome with Pilon
Pilon
Pacbio
Polish
Illumina
5 days ago by
sansan_96
▴ 90
1
vote
2
replies
235
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
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
115
views
Is there a real ground truth for CNV data?
CNV
5 days ago by
jennyp0706
• 0
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
0
votes
3
replies
214
views
How to access GWAVA software of data
GWAVA
updated 5 days ago by
GenoMax
142k • written 6 days ago by
nonaddldy
▴ 10
0
votes
0
replies
95
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
6 days ago by
Spring
• 0
0
votes
2
replies
190
views
Is it necessary to do genotype quality filteration after snp calling with GATK
snp
filteration
genotype
quality
GATK
6 days ago by
IdaHao0921
• 0
0
votes
3
replies
359
views
Snakemake wrapper issue
fastqc
snakemake
updated 6 days ago by
Wei-Chen Pan
• 0 • written 9 weeks ago by
Matvii Mykhailichenko
• 0
0
votes
1
reply
166
views
How to process Bulk WES data?
WES
WGS
updated 6 days ago by
GenoMax
142k • written 6 days ago by
wyuan37
• 0
0
votes
1
reply
164
views
Can diamond prepdb be used to make a taxonomically aware database?
blast
diamond
taxonomy
updated 6 days ago by
GenoMax
142k • written 6 days ago by
cedric.blais
• 0
0
votes
1
reply
152
views
Empty .best and .sing2 Files After Running Demuxlet
Biosciences
Demuxlet
updated 6 days ago by
Ram
43k • written 6 days ago by
eking28
• 0
0
votes
0
replies
107
views
reference-free assembly error assessment tools
assembly
6 days ago by
lagartija
▴ 160
0
votes
4
replies
269
views
Galaxy StringTie error
stringtie
galaxy
6 days ago by
trkfs
• 0
0
votes
0
replies
105
views
dbNSFP sift scores integration
SIFT
VEP
dbNSFP
6 days ago by
atariw
▴ 10
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
0
votes
1
reply
166
views
consensus sequence calling
consensus
updated 6 days ago by
bk11
★ 2.5k • written 7 days ago by
Ghada
• 0
0
votes
0
replies
90
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
7 days ago by
JACKY
▴ 140
0
votes
0
replies
105
views
Reference panel of normals for ensembl named refgenome
Mutect2
7 days ago by
gernophil
▴ 80
1
vote
0
replies
100
views
Producing sequence for splicing isoforms
isoform
rMATs
splicing
alternative
SplAdder
7 days ago by
tomas4482
▴ 400
3
votes
2
replies
204
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 7 days ago by
ATpoint
82k • written 7 days ago by
jennyp0706
• 0
0
votes
0
replies
113
views
lncRNA
tcga
lncrna
7 days ago by
jain72744
▴ 10
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
0
votes
2
replies
219
views
Output file of samtools flagstat empty
samtools-flagstat
updated 7 days ago by
colindaven
6.4k • written 7 days ago by
ramendra.sarma
• 0
0
votes
4
replies
408
views
Adata.raw.X in LIANA, something wrong with conversion from Seurat to adata in python.
k
7 days ago by
beginner123
• 0
0
votes
2
replies
236
views
java.nio.bufferunderflowexception haplotypecaller error for bqsr reads
deducplicated
java.nio.bufferunderflowexception
haplotypecaller
bqsr
7 days ago by
analyst
▴ 50
0
votes
1
reply
209
views
extract viral protein of interest from 10k whole viral genomes
nBLAST
viral-genome
updated 9 days ago by
Ram
43k • written 9 days ago by
Shwetha
• 0
0
votes
0
replies
165
views
Marker Features variance by cluster, sample, and treatment group
Seurat
scATAC-seq
ArchR
updated 9 days ago by
Ram
43k • written 9 days ago by
naomiboldon
• 0
1
vote
3
replies
295
views
How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
gatk
vcf
liftover
updated 9 days ago by
Ram
43k • written 9 days ago by
Omics data mining
▴ 260
0
votes
5
replies
330
views
Too many unpaired forward reads found by Trimmomatic
Trimmomatic
6 days ago by
SilhouetteQ
• 0
0
votes
1
reply
198
views
Alignment of samples with spike-in
alignment
multimapping
RNA-seq
ChIP-seq
spike-in
updated 10 days ago by
GenoMax
142k • written 10 days ago by
maria.soler
• 0
0
votes
2
replies
302
views
How are score_weights calculated in this code?
single-cell
9 days ago by
carolofharvest
▴ 40
0
votes
1
reply
229
views
How to convert Haps file to vcf file?
pre-phasing
GWAS
imputation
updated 9 days ago by
curious
▴ 750 • written 10 days ago by
SeoGyun
• 0
0
votes
0
replies
157
views
Trouble converting tfam and tped to map and ped files
plink
ped
tfam
tped
map
10 days ago by
Samantha
• 0
0
votes
1
reply
195
views
Microbial Signal Transduction Database
MiST
updated 10 days ago by
zx8754
11k • written 10 days ago by
Shravani
• 0
0
votes
0
replies
145
views
Allele specific expression of imprinted gens from 10x scRNA-seq data
scrna-seq
imprinted
10x
genes
10 days ago by
singcell
• 0
0
votes
1
reply
221
views
When should I use R-MarkDown over R-Script ?
r
rscript
rmarkdown
updated 10 days ago by
ATpoint
82k • written 10 days ago by
Amr
▴ 160
0
votes
2
replies
239
views
LncRNA Nomenclature
ENST
nomenclature
lncrna
GBB
ENSG
10 days ago by
jain72744
▴ 10
3
votes
1
reply
209
views
Question about methylation location
Methylation
WGBS
bisulfide
updated 10 days ago by
dthorbur
★ 2.0k • written 10 days ago by
Eren
• 0
0
votes
0
replies
158
views
Krona Pie-chart taxanomy IDs were not found warning. Taxonomy Classification Metagenomics
Classification
Metagenomics
Krona
Kraken2
10 days ago by
Aytaç
• 0
1,000 results • Page
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Recent Votes
Answer: Q: GenomeScope input and how to interpret the results
Answer: How to find tandem duplications pattern in a DNA sequence
A: How To Split One Big Sequence File Into Multiple Files With Less Than 1000 Seque
C: Snakemake vs. Nextflow: strengths and weaknesses
Answer: workflow management system : WDL, CWL, Ruffus, SnakeMake, etc
Sequence alignment on split read event such as inversion, duplication and complex nested events.
ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
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161k
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Recent Replies
Answer: GATK Structural Variants Pipeline - Steps
by
Pierre Lindenbaum
161k
> A structural variation pipeline for short-read sequencing https://github.com/broadinstitute/gatk-sv
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))`
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