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120,821 results • Page
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Comparing HMMER vs. HHrepID for LRR Repeat Detection and Boundary Consistency
hmmer
repeats
just now by
jllPons
• 0
0
votes
0
replies
37
views
circos plot help
visualization
config
circos
SNV
genomics
5 hours ago by
Genomancer
• 0
0
votes
1
reply
114
views
How to identify additional SNPs on EPICv2
SNPs
methylation
EPIC
updated 13 hours ago by
Joe
▴ 40 • written 1 day ago by
Basti
★ 2.0k
1
vote
3
replies
115
views
DAVID List Upload/Gene Conversion Tool
DAVID
list
gene
upload
updated 11 hours ago by
GenoMax
150k • written 13 hours ago by
b5708137
• 0
0
votes
8
replies
2.8k
views
6 follow
CIBERSORTx error: 'x' must be an array of at least two dimensions
matrix
CIBERSORTx
signature
updated 10 hours ago by
GenoMax
150k • written 2.7 years ago by
Jie
• 0
835
votes
169
replies
171k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 6 months ago by
Biostar
3.4k • written 8.3 years ago by
Istvan Albert
102k
1
vote
2
replies
420
views
Can I combine segment results from Sequenza and cnvkit?
CNV
sequenza
cnvkit
13 hours ago by
Ram
45k
0
votes
3
replies
126
views
SNPcheck alternative
SNPCheck
updated 15 hours ago by
Pierre Lindenbaum
165k • written 18 hours ago by
KirGen
▴ 30
0
votes
3
replies
126
views
Shotgun dataset with polyG, low qualiity
data
shotgun
updated 15 hours ago by
GenoMax
150k • written 16 hours ago by
shevch2009
• 0
0
votes
2
replies
113
views
MAGeCK: Doing two sided test on gene level?
MAGeCK
17 hours ago by
gernophil
▴ 120
0
votes
5
replies
172
views
Is TETranscripts useful for repetitive sequences analysis?
TEtranscripts
updated 1 hour ago by
Michael
55k • written 21 hours ago by
frarodmar17
• 0
0
votes
3
replies
126
views
SlingShot and Subsetting data
scrna
slingshot
trajectory
updated 16 hours ago by
jared.andrews07
★ 18k • written 21 hours ago by
carolofharvest
▴ 50
0
votes
1
reply
233
views
Bulk searching UniProt
uniprot
updated 21 hours ago by
Elisabeth Gasteiger
★ 2.4k • written 4 days ago by
timothy.kirkwood
▴ 140
3
votes
5
replies
168
views
Problem with Accession Number Changes in UniProt FASTA Sequences
FASTA
Accession
Uniprot
IdMapping
updated 19 hours ago by
GenoMax
150k • written 21 hours ago by
bioinfo_enthusiast
• 0
1
vote
2
replies
282
views
PPI Network Analysis of Virulence Genes in Morganella morganii Using STRING Database
PPI
STRING
21 hours ago by
bioinfo_enthusiast
• 0
12
votes
8
replies
371
views
6 follow
Forum:
Reproducibility Crisis
R-Bioinformatics
updated 15 hours ago by
GenoMax
150k • written 1 day ago by
ParastooA
▴ 10
6
votes
13
replies
7.3k
views
7 follow
Getting sample information from GEO
GEO
NCBI
updated 22 hours ago by
DareDevil
★ 4.4k • written 7.8 years ago by
Tom_L
▴ 360
0
votes
3
replies
141
views
How to Close a Phage Genome? Issues with PhageTerm and CheckV Completeness
phage
genome
assembly
PhageTerm
updated 18 hours ago by
GenoMax
150k • written 23 hours ago by
mail2steff
▴ 70
2
votes
2
replies
144
views
RepBase30.02.fasta.tar.gz
RepBase30.02.fasta.tar.gz
offtopic
updated 22 hours ago by
Michael
55k • written 1 day ago by
jupitoy
• 0
1
vote
5
replies
1.1k
views
CIBERSORTx error (error in rep(2, size * length(cells) -1)) : invalid 'times' argument
deconvolution
RNA-seq
CIBERSORTx
CIBERSORT
updated 6 weeks ago by
zhbyrd
• 0 • written 9 months ago by
Mr. George
▴ 10
1
vote
2
replies
180
views
Differences in DEG results using RSEM with and without the --strandness reverse
rsem
DEG
STAR
transcriptomic
updated 6 hours ago by
LauferVA
4.6k • written 1 day ago by
Emy Alade
• 0
3
votes
5
replies
282
views
Absolute vs. differential gene expression - which analysis is more informative?
Differential-gene-expression
Gene-expression
RNA-Seq
updated 6 hours ago by
LauferVA
4.6k • written 1 day ago by
bioinfo1990
▴ 10
2
votes
3
replies
256
views
making psam file for plink2
plink2
19 hours ago by
dec986
▴ 380
4
votes
4
replies
217
views
gtf file for canFam2 genome version
gtffile
1 day ago by
1769mkc
★ 1.2k
2
votes
2
replies
275
views
Bioinformatics
DB
String
updated 1 day ago by
Mensur Dlakic
★ 29k • written 2 days ago by
ahmad79rezahay
• 0
0
votes
0
replies
98
views
News:
Epigenomics Data Analysis
Epigenomics
RNA-seq
ATAC-seq
Chip-seq
HI-C
1 day ago by
Physalia-courses
★ 2.6k
4
votes
8
replies
434
views
does any licenses needed to make experiments?
offtopic
updated 1 day ago by
Dunois
★ 2.9k • written 2 days ago by
suleyman
• 0
6
votes
5
replies
221
views
Strange overrepresented sequence
fastQC
adapter
rnaseq
1 day ago by
georomano
• 0
13
votes
6
replies
6.1k
views
Add metadata based on tree structure
R
ggtree
updated 1 day ago by
rsieber
▴ 10 • written 5.4 years ago by
Jack
▴ 50
0
votes
3
replies
163
views
Normalize RNAseq data on RT-dPCR or RT-qPCR
RNAseq
updated 1 day ago by
ATpoint
87k • written 1 day ago by
lagartija
▴ 160
0
votes
2
replies
178
views
Is there a way to import a large amount of regions of interest into IGV
sequencing
igv
genomics
ngs
updated 1 day ago by
GenoMax
150k • written 2 days ago by
Mark
▴ 30
4
votes
10
replies
547
views
Question about an alignment
ces
sequencing
alignment
19 hours ago by
barslmn
★ 2.4k
0
votes
2
replies
195
views
Arioc (read mapping) ref sequence length error
mapping
gpu
arioc
read
1 day ago by
Michael
• 0
0
votes
0
replies
178
views
When I want to compare two groups at multiple time points in scRNA-seq datasets, the criteria for the genes to be analyzed
Seurat
scRNA-seq
2 days ago by
Apprentice
▴ 170
7
votes
6
replies
489
views
Heatmap problem in R
R
Heatmap
3 days ago by
ParastooA
▴ 10
3
votes
4
replies
337
views
Bacterial VCF file annotation using snpEff error
SnpEff
2 days ago by
1769mkc
★ 1.2k
0
votes
4
replies
295
views
Coverage depth using samtools
samtools
ngs
depth
sequencing
coverage
1 day ago by
slzr_
• 0
0
votes
2
replies
259
views
MarkDuplicates RNASeq: A few samples look weird. What could be the cause?
qc
markduplicates
picard
rnaseq
updated 3 days ago by
GenoMax
150k • written 3 days ago by
Davor
• 0
0
votes
1
reply
214
views
Data Integrity (NCBI SRA and TCGA)
clinic
metadata
updated 3 days ago by
GenoMax
150k • written 3 days ago by
umarfaruksahin
• 0
0
votes
0
replies
1.0k
views
concatenating 2 differently-imputed VCF files then filtering by imputation score to keep the higher imputation score imputed vaiant from duplicate v…
Imputation
filtration
score
duplicate
variants
3 days ago by
SalmaElShafie
• 0
0
votes
0
replies
160
views
loss of coverage using gargammel
gargammel.pl
ART
AdapterRemoval
3 days ago by
anna.utili
• 0
0
votes
1
reply
225
views
What is the stance on optical duplicates in RNASeq?
duplicates
rnaseq
optical-duplicates
updated 3 days ago by
GenoMax
150k • written 3 days ago by
Davor
• 0
2
votes
4
replies
364
views
How to rank genes for GSEA using edgeR-LRT results ?
DEG
edgeR
updated 1 day ago by
dariober
15k • written 4 days ago by
Picasa
▴ 660
4
votes
3
replies
398
views
Using bulk RNA-seq DE results to perform PCA in single cell RNA-seq
Single-cell
scRNAseq
updated 1 day ago by
jared.andrews07
★ 18k • written 5 days ago by
Oli
• 0
3
votes
1
reply
232
views
Access to dbSnp137 (GRCh37)
dbSnp137
GRCh38
dbSnp
updated 4 days ago by
Marcellie87
▴ 10 • written 4 days ago by
Steven
▴ 50
0
votes
0
replies
169
views
How to convert RAP-DB/MSU IDS to RefSeq/Entrez Gene IDS?
IRGSP
Entrez
RAP-DB
RefSeq
4 days ago by
ChanderKant (CK) Chaudhary
▴ 10
4
votes
4
replies
1.7k
views
Annotating single cell data automatically
single-cell
updated 4 days ago by
S.Ghazala
▴ 60 • written 11 months ago by
Gerard
▴ 10
4
votes
0
replies
252
views
News:
Join the online/distributed nf-core Hackathon next week!
nf-core
nextflow
container
workflows
bioinformatics
4 days ago by
Matthias Zepper
5.1k
0
votes
3
replies
311
views
Non variants sites of the genome (gVCF file)
non
genome
variants
sites
gVCF
updated 1 day ago by
LauferVA
4.6k • written 4 days ago by
heureuse
▴ 10
1
vote
1
reply
245
views
Choosing the "right" sequence as an input control
input
control
chipseq
updated 4 days ago by
ATpoint
87k • written 4 days ago by
mark.pekarsky
▴ 20
120,821 results • Page
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Comment: Cytoscape Tetramer Error Without Hints
Cytoscape Tetramer Error Without Hints
Cytoscape Tetramer Error Without Hints
Comment: Reproducibility Crisis
Comment: Absolute vs. differential gene expression - which analysis is more informative?
Comment: DAVID List Upload/Gene Conversion Tool
Comment: Can I combine segment results from Sequenza and cnvkit?
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Comment: Cytoscape Tetramer Error Without Hints
by
e.r.zakiev
▴ 250
have you been able to download the networks? The links are all dead ![enter image description here][1] [1]: /media/images/082f594e-dbe8…
Comment: Is TETranscripts useful for repetitive sequences analysis?
by
Michael
55k
I have only used this once, but I think the inclusion of any element depends on whether it is present in the GFF file. If the region has co…
Comment: Absolute vs. differential gene expression - which analysis is more informative?
by
LauferVA
4.6k
In my opinion, these questions cannot be answered meaningfully without knowing more about your scientific goals. take for example your ques…
Comment: DAVID List Upload/Gene Conversion Tool
by
GenoMax
150k
Looks like your data is from *Metarhizium anisopliae* and DAVID is not able to use the ID's. Look into alternate options. Some mentioned he…
Comment: DAVID List Upload/Gene Conversion Tool
by
b5708137
• 0
Thank you for your answer, I added the examples in the previous post. One of them starts as your example stated, so there's a probability t…
Answer: How to identify additional SNPs on EPICv2
by
Joe
▴ 40
Our recent work provides annotation files for unambiguous probes on the Illumina 450K, EPIC/850K, and EPICv2.0/935K methylation arrays. Add…
Comment: DAVID List Upload/Gene Conversion Tool
by
GenoMax
150k
Anytime you are referring to ID's, post a few examples. If your ID's are computationally predicted (e.g. `XP*`) then DAVID may not be abl…
Comment: Can I combine segment results from Sequenza and cnvkit?
by
Ram
45k
Thank you, I have posted there; link: https://github.com/etal/cnvkit/discussions/948
Comment: CIBERSORTx error: 'x' must be an array of at least two dimensions
by
Jianying
• 0
Unfortunately, I do not have an answer. Instead, I want to report exact same error message when I attempted to run CibersortX. I would like…
Comment: Can I combine segment results from Sequenza and cnvkit?
by
GenoMax
150k
Posting this on https://github.com/etal/cnvkit/discussions may get a response.
Comment: Shotgun dataset with polyG, low qualiity
by
GenoMax
150k
I wonder if you can use methods that work for degraded DNA (e.g. from bones/paleontology etc). What do you ultimately hope to get from this…
Comment: Reproducibility Crisis
by
GenoMax
150k
> If the results are not identitical they cannot be called consistent. In terms of numeric precision yes. But we already know that to be t…
Comment: SNPcheck alternative
by
Pierre Lindenbaum
165k
> Do you know where I can find informations about SNP in these tools? Thanks ncbi dbsnp => download
Comment: Reproducibility Crisis
by
Bastien Hervé
6.2k
If the results are not identitical they cannot be called consistent. I was thinking about [this][1] kind of issues [1]: https://www.r-…
Comment: SNPcheck alternative
by
KirGen
▴ 30
I have tried to use them but I didn't find informations about SNP that could interest my primers. Do you know where I can find informations…
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