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1,000 results • Page
2 of 20
Sort: Rank
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Votes
Replies
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
4 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
187
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
358
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
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 6 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
6 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 9 days ago by
GenoMax
142k • written 9 days ago by
maria.soler
• 0
0
votes
2
replies
302
views
How are score_weights calculated in this code?
single-cell
8 days ago by
carolofharvest
▴ 40
0
votes
1
reply
228
views
How to convert Haps file to vcf file?
pre-phasing
GWAS
imputation
updated 9 days ago by
curious
▴ 750 • written 9 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
194
views
Microbial Signal Transduction Database
MiST
updated 9 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 9 days ago by
ATpoint
82k • written 10 days ago by
Amr
▴ 160
0
votes
2
replies
238
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 9 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
0
votes
0
replies
171
views
How do I calculate SE or P value if I only have BETA
prscsx
beta
se
pvalue
updated 9 days ago by
zx8754
11k • written 10 days ago by
curious_butterfly
• 0
0
votes
0
replies
165
views
supervised admixture
supervised
admixture
10 days ago by
RT
▴ 10
0
votes
2
replies
231
views
Presence of unknown sites in ANNOVAR output file
ANNOVAR
updated 9 days ago by
Ram
43k • written 10 days ago by
sainavyav22
• 0
3
votes
4
replies
332
views
Truncated metadata file report from ENA Portal API
ena
python
9 days ago by
Giulia
• 0
0
votes
0
replies
189
views
What is workflow for de-novo assembling of nuclear and mito genomes of non-model organisms
de-novo
WGS
DNA-seq
assembling
10 days ago by
Matvii Mykhailichenko
• 0
0
votes
1
reply
157
views
input file for alternative splicing in rmats in linux
rmats
updated 10 days ago by
Ram
43k • written 10 days ago by
Lambodarswain316
• 0
1
vote
1
reply
459
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 10 days ago by
Jaïr
• 0 • written 5 months ago by
NorbertK
▴ 10
1,000 results • Page
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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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Recent Replies
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…
Comment: Add stats to the plot
by
GenoMax
142k
Please use `101010` to format `code` so it is represented in monospace font. I have done this for you now.
Answer: is there a tool to recover corrupted fastq files
by
Tommaso
• 0
You may also want to give a try to **FastqWiper** (https://github.com/mazzalab/fastqwiper)
Comment: Add stats to the plot
by
Ghada
• 0
Thanks. That helpful. I am getting this error data4_test <- data4.ts%>% ungroup() %>% t.test(data =.,value ~ Condition)%>% + …
Comment: scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
by
ATpoint
82k
I cannot comment here. You are asking why results between two experiments are different. I do not know without seeing the data.
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