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88 results • Page
2 of 2
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Votes
Replies
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
175
views
perseus software (version 1.5.5)
preseus
mass
spectrometry
data
updated 3 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
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
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
211
views
How to access GWAVA software of data
GWAVA
updated 5 days ago by
GenoMax
142k • written 5 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
188
views
Is it necessary to do genotype quality filteration after snp calling with GATK
snp
filteration
genotype
quality
GATK
5 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
268
views
Galaxy StringTie error
stringtie
galaxy
5 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
356
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 6 days ago by
Ghada
• 0
0
votes
0
replies
90
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
6 days ago by
JACKY
▴ 140
0
votes
0
replies
105
views
Reference panel of normals for ensembl named refgenome
Mutect2
6 days ago by
gernophil
▴ 80
1
vote
0
replies
100
views
Producing sequence for splicing isoforms
isoform
rMATs
splicing
alternative
SplAdder
6 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 6 days ago by
ATpoint
82k • written 6 days ago by
jennyp0706
• 0
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 6 days ago by
colindaven
6.4k • written 7 days ago by
ramendra.sarma
• 0
0
votes
5
replies
330
views
Too many unpaired forward reads found by Trimmomatic
Trimmomatic
6 days ago by
SilhouetteQ
• 0
1
vote
4
replies
332
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 1 day ago by
Joe
21k • written 11 days ago by
cput
• 0
5
votes
7
replies
520
views
RNA seq analysis
DESeq
RNA-seq
4 days ago by
Jacek
▴ 20
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 13 days ago by
sarumonsus
▴ 10
3
votes
3
replies
296
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 6 days ago by
Ram
43k • written 20 days ago by
Adyasha
• 0
0
votes
0
replies
127
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 6 days ago by
Ram
43k • written 21 days ago by
atharvakarkare14
▴ 40
0
votes
0
replies
183
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
deeptools
correlation
6 days ago by
Emily
▴ 20
0
votes
2
replies
302
views
Traveler with Infernal mapping failed
r2dt
updated 1 day ago by
anton.i.petrov
• 0 • written 3 months ago by
Larissa
• 0
0
votes
9
replies
608
views
Using VEP annotation output as the input for a second VEP annotation
Annotation
VEP
VCF
4 days ago by
Arton
▴ 10
2
votes
9
replies
1.1k
views
HGVS Nomenclature of Multiple Indels found in Cis
Nomenclature
HGVS
18 hours ago by
LauferVA
4.2k
0
votes
4
replies
3.6k
views
SNPEff database building error
SNP
updated 6 days ago by
Fungal genetics
• 0 • written 7.1 years ago by
ntyagi654
• 0
88 results • Page
2 of 2
Recent Votes
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
Comment: Add stats to the plot
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Popular Question
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Raghad
• 0
Scholar
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Pierre Lindenbaum
161k
Voter
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Sara
▴ 30
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carlopecoraro2
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synat.keam
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Recent Replies
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…
Comment: Add stats to the plot
by
marco.barr
▴ 130
The error is likely due to the fact that the structure of your data in data4.ts and data2.ts may not contain the Condition values. The grou…
Comment: How to find identical sequences in genome fasta file (by Python or any possible
by
Pierre Lindenbaum
161k
+ https://www.biostars.org/p/3003/ + https://www.biostars.org/p/9550118/ + https://www.biostars.org/p/158148/
Answer: How to find tandem duplications pattern in a DNA sequence
by
micah
▴ 30
I built a web application can directly find repeat unit and repeat times, try it at http://64.64.240.35:8050/. ![Dot plot][1] ![5 tandem …
Comment: What marks a De-Novo Genome assembly as FAILED?
by
nd48
▴ 20
I would urge you to consider different approaches for benchmarking before deciding on one. In particular, I found that assembling long read…
Comment: BiomartException: Query ERROR for existing dataset in BioMart
by
Luqman
• 0
I am using *pybiomart* which has Server inplace of BiomartServer, I used that as per above but still getting the same error. Also, when I a…
Comment: Blastn, need help to increase speed
by
m13113153781
• 0
mmseq2 is indeed a good acceleration solution, but its index files require ~ 6 T space....
Answer: seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from
by
KHURRAM SHAHZAD
• 0
Thank you it works
Answer: Add stats to the plot
by
Ghada
• 0
I think this is what caused the error. we do not have group 1 and 2 in the statistical test results???? ![enter image description here][…
Comment: scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
by
Bibi
• 0
@atpoint thanks you for your timely response. Can someone else shed light if we can compare the trend of DEGs using the scRNA and Bulk RNA…
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