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121,288 results • Page
9 of 2426
Sort: Rank
Rank
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Votes
Replies
0
votes
1
reply
358
views
News:
Structural bioinformatics workshop
Structural-bioinformatics
updated 7 weeks ago by
Ram
45k • written 7 weeks ago by
reetesh
• 0
1
vote
10
replies
928
views
How to test the similarity of two gene expression profiles
gene-sets
updated 7 weeks ago by
Ram
45k • written 7 weeks ago by
htchd
• 0
3
votes
3
replies
452
views
Which are the different kinds of GeneID that exist?
R
RNA-Seq
7 weeks ago by
pinheirofabiano
▴ 130
0
votes
0
replies
270
views
Error using DWLS
deconvolution
DWLS
RNAseq
7 weeks ago by
Ana
▴ 10
0
votes
5
replies
1.9k
views
How to remove this module selection error?
WGCNA
updated 7 weeks ago by
香
• 0 • written 2.5 years ago by
gupta00aritra
• 0
0
votes
2
replies
1.6k
views
bbsplit : How to configure ambiguous/ambiguous2 parameters in order to consider as unmapped reads, reads mapped on both human/mouse references.
bbsplit
nextflow
updated 6 weeks ago by
GenoMax
151k • written 7 weeks ago by
ZheFrench
▴ 590
1
vote
2
replies
393
views
Limma for DEG analysis
R
DEG
limma
updated 7 weeks ago by
Ram
45k • written 7 weeks ago by
rahma.khoualdia
• 0
0
votes
0
replies
282
views
deletion impact
vcf
updated 7 weeks ago by
GenoMax
151k • written 7 weeks ago by
HarperReed
• 0
0
votes
2
replies
383
views
Help finding GTEx v8 file
GTEx
SHAPEIT2
7 weeks ago by
蒲蒲
• 0
2
votes
5
replies
490
views
Idat file processing issue with command line cli
CanineHTS
IDAT
7 weeks ago by
1769mkc
★ 1.3k
0
votes
0
replies
262
views
is there a way to get --ref paths to prioritize my order with vg call?
call
vg
vgcall
7 weeks ago by
PolenP
• 0
0
votes
1
reply
350
views
Has anyone tried used simple ML models to identify virulence genes?
genetics
R
classifier
genomics
machinelearning
updated 7 weeks ago by
Mensur Dlakic
★ 29k • written 7 weeks ago by
Jack
• 0
0
votes
4
replies
543
views
What does vg autoindex mpmap do?
vg
mpmap
autoindex
7 weeks ago by
Ziyue
• 0
5
votes
4
replies
626
views
How to keep the same view for different AlphaFold 3 simulations in ChimeraX?
chimerax
alphafold
3
updated 7 weeks ago by
LauferVA
4.7k • written 7 weeks ago by
Picasa
▴ 680
0
votes
0
replies
269
views
filtering genes before or after the correlation?
co-expression
feature
selection
correlation
7 weeks ago by
tyasird
▴ 10
0
votes
16
replies
1.2k
views
Which tools use or rely on the XA tag in SAM/BAM/CRAM files?
cram
XA
compress
updated 7 weeks ago by
JustinZhang
▴ 140 • written 7 weeks ago by
Maarten
• 0
3
votes
6
replies
592
views
Which additional files are needed for the -taxids option in blast?
decontamination
taxids
blastn
27 days ago by
WaspInSpace
• 0
0
votes
0
replies
301
views
Job:
Assistant, Associate, or Full Project Scientist in Neurobiology
Biology
Neuroscience
Neurobiology
7 weeks ago by
UCSDBioSci
▴ 30
1
vote
3
replies
487
views
Is Centering and Scaling Essential for Expression Data as Input for Machine Learning Algorithms?
featureselection
microarray
preprocessing
7 weeks ago by
Sib
▴ 70
0
votes
0
replies
275
views
News:
Online Course: Machine learning for multi-omics integration (9–11 June)
Machine-Learning
Mult-Omics
7 weeks ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
429
views
Single Nuclei RNA-Sequencing Analysis Without CellRanger
CellRanger
single-cell
snRNA-seq
7 weeks ago by
16_masques.vole
• 0
0
votes
1
reply
329
views
Demultiplexing samples when barcodes repeat: Any advice?
seurat
demultiplex
singlecell
scRNAseq
updated 6 weeks ago by
Pratik
★ 1.1k • written 7 weeks ago by
tia
• 0
1
vote
1
reply
463
views
Unable to generate hierarchical and circle plot using CellChat
cellchat
scRNAseq
Seurat
7 weeks ago by
S
• 0
0
votes
8
replies
811
views
Discrepancy between positions on IGV and NCBI's PrimerBLAST
igv
primer
blast
7 weeks ago by
Rozita
▴ 40
0
votes
2
replies
363
views
Steps for meta-analysis
Meta-Analysis
differential-expression
updated 7 weeks ago by
Ram
45k • written 7 weeks ago by
majorprogeria
• 0
5
votes
1
reply
406
views
News:
The IGB team needs your help! Write a letter of support to keep the Integrated Genome Browser running!
IGB
Integrated-Genome-Browser
Funding
updated 7 weeks ago by
microfuge
★ 2.0k • written 7 weeks ago by
Nowlan Freese
▴ 900
0
votes
0
replies
275
views
how pd tag were defined in gaf file
vg
7 weeks ago by
chuanj8848
• 0
5
votes
4
replies
709
views
SRA Toolkit - three fastq files - which is which?
scrna
sratoolkit
updated 4 weeks ago by
GenoMax
151k • written 7 weeks ago by
Neat
• 0
1
vote
0
replies
308
views
Herald:
The Biostar Herald for Wednesday, April 09, 2025
herald
7 weeks ago by
Biostar
3.6k
6
votes
6
replies
766
views
Methods for directional pathway analysis of DEGs?
Pathway-analysis
ORA
GSEA
Limma
updated 7 weeks ago by
Gordon Smyth
★ 8.1k • written 8 weeks ago by
Steven
▴ 10
0
votes
0
replies
279
views
GTDB-tk classify_wf
GTDB-tk
classification
taxonomic
7 weeks ago by
pranjalarun10
• 0
0
votes
1
reply
627
views
Help finding proteases that most likely cleaved a peptide from a full-length protein
R
peptides
proteasix
updated 7 weeks ago by
Fatemeh
▴ 40 • written 20 months ago by
georgiamorgannn
• 0
0
votes
1
reply
1.1k
views
ADMIXTOOLS: qp3pop fatal error (probably missing pop)
qp3pop
f3test
admixtools
updated 7 weeks ago by
Duy
• 0 • written 2.9 years ago by
francesco.fontani2
• 0
0
votes
2
replies
421
views
Annotate GFA with coverage depth
vg
7 weeks ago by
elcortegano
▴ 210
3
votes
4
replies
1.2k
views
Query coverage high, E-value low, and identity low - Blastp results interpretation and article recommended?
sequence-analysis
blastp
protein
updated 7 weeks ago by
Mensur Dlakic
★ 29k • written 7 weeks ago by
Luana JBC
• 0
0
votes
0
replies
222
views
Need Help Regarding Back-Splicing Junction Coordinates in CIRI2 Output
circRNA
CIRI2
updated 7 weeks ago by
GenoMax
151k • written 7 weeks ago by
Faraz
• 0
1
vote
6
replies
673
views
Short reads to identify stuctural variants
SV
long-read
short-read
6 weeks ago by
priya.bmg
▴ 70
0
votes
0
replies
381
views
Best approach for SNP calling in tumor single-cell multiome data (scRNA-seq + scATAC-seq) for CNV analysis
variant
SNP
single-cell
7 weeks ago by
nilaylale88
• 0
0
votes
0
replies
241
views
News:
News:Workshop:Virtual Genome Assembly, April 15-17
virtual-workshop
Genome-Assembly
UConn
updated 8 weeks ago by
Ram
45k • written 8 weeks ago by
zsc25001
▴ 10
0
votes
3
replies
429
views
C.reinhardtii single-cell Seurat object - gene names instead of loci
loci
Chlamydomonas
single-cell
updated 8 weeks ago by
GenoMax
151k • written 8 weeks ago by
Ana
▴ 10
1
vote
4
replies
484
views
Snakemake Global Environment Container
Snakemake
Conda
Singularity
7 weeks ago by
meetmet
▴ 10
0
votes
2
replies
446
views
GTF repeatmasker annotation file
repeatmasker
GTF
updated 7 weeks ago by
rfran010
★ 1.5k • written 8 weeks ago by
frarodmar17
• 0
0
votes
2
replies
1.5k
views
Searching for online tools to prepare mitochondrial codon usage
genome
updated 8 weeks ago by
aboozar.soorni
▴ 30 • written 4.8 years ago by
puipui
• 0
1
vote
1
reply
275
views
Getting sequences fragments using pysam
sequencing
pysam
reads
wgs
updated 8 weeks ago by
i.sudbery
21k • written 8 weeks ago by
Juls
• 0
6
votes
9
replies
3.2k
views
Does EnhancedVolcano() supports crosstalk()?
EnhancedVolcano
crosstalk
R
ggplot
updated 8 weeks ago by
GenoMax
151k • written 5.3 years ago by
IrK
▴ 100
0
votes
1
reply
287
views
How to select GEO datasets for differential expression analysis using GEO2R
GEO
DEGs
GEO2R
updated 8 weeks ago by
ATpoint
88k • written 8 weeks ago by
dreamer247
• 0
0
votes
0
replies
305
views
Blog:
Unlocking the Cellular Universe: The Importance of Single-Cell Sequencing in Animal and Plant Research
Single-cell
8 weeks ago by
Novogene
▴ 510
0
votes
4
replies
872
views
PopGenome lost individual information
PopGenome
updated 8 weeks ago by
Arup Ghosh
3.3k • written 14 months ago by
Yixuan
• 0
1
vote
1
reply
330
views
Question About Handling Technical Replicates in ATAC-seq
technical-replicate
atacseq
updated 8 weeks ago by
rfran010
★ 1.5k • written 8 weeks ago by
LuciaNhu
▴ 10
12
votes
16
replies
19k
views
8 follow
How to convert vcf to 23andme format
genome
sequencing
SNP
updated 8 weeks ago by
ngelbal
• 0 • written 7.7 years ago by
alec_djinn
▴ 390
121,288 results • Page
9 of 2426
Recent Votes
A: How to combine multiple pheatmap figures and use common legend?
Answer: Biological meaning of metrics commonly used for QC in scRNA-seq?
Answer: Fungal Annotation Comparison
Comment: Cut&Run TF Analysis - Very Low Peak Counts Despite Good Library Quality
Answer: Fungal Annotation Comparison
Answer: Fungal Annotation Comparison
Answer: Fungal Annotation Comparison
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Recent Replies
Comment: ERROR::INVALID_TAG_NM:Record A, Read name B, NM tag (nucleotide differences) in
by
curious
▴ 890
Thanks for the response I think I am more wondering if this is a typical thing that people see and am wondering what is wrong with my data…
Answer: WGCNA pickSoftThreshold problem
by
LChart
4.9k
2.5K genes sounds to me like over-filtering; and what was your rationale for removing variable (high CV) genes? My suggestion would be to o…
Comment: plotProfile Errors of DiffBind
by
this_is_me_trying
• 0
Hello, I'm having the same problem. Did you find a solution?
Comment: Cut&Run TF Analysis - Very Low Peak Counts Despite Good Library Quality
by
ATpoint
88k
There is mostly noise and no clear signal. It suggests that, as said before, IP was bad.
Answer: Fungal Annotation Comparison
by
colindaven
7.5k
There are many reasons for this discrepancy as others have said - consider that different technologies are behind the assemblies. Long …
Comment: Use taxdb tp get scientific names in local BLAST output
by
lieven.sterck
15k
most likely an issue with your fasta headers and/or with the link to your taxdb. Can you post a small extract of both files?
Comment: Use taxdb tp get scientific names in local BLAST output
by
GenoMax
151k
Can you show the headers of gene sequences you downloaded? It may be best to subset sequences you need from the pre-formatted blast+ databa…
Comment: Fungal Annotation Comparison
by
GenoMax
151k
BLAST is a standard option but `mmseq2` may be more efficient for this task: https://github.com/soedinglab/MMseqs2 In any case there will …
Comment: Fungal Annotation Comparison
by
lieven.sterck
15k
You could consider to run some BLAST analyses between the two annotation results. All vs all on protein and CDS level for instance. That wa…
Answer: Fungal Annotation Comparison
by
shelkmike
★ 1.6k
I can think of three possible explanations: <br> a) The first annotation has some false positive predictions (which means some non-coding r…
Comment: Fungal Annotation Comparison
by
SomeOne
▴ 170
Hi @genomax Thank you for detailed reply. I understand all the points you have mentioned, those can be a potential source of this differ…
Answer: Fungal Annotation Comparison
by
GenoMax
151k
This question is difficult to answer satisfactorily. But I will take a stab. While it may be the same strain, technology keeps moving ahe…
Answer: Is comparing seeds sufficient, or should alignments be compared instead?
by
shenwei356
8.7k
Based on my experience in developing an alignment tool, I believe both are important. In the seeding phase, the priority is ensuring hig…
Answer: How to download protozoa reference genomes from NCBI
by
colindaven
7.5k
I know they're not the same, but you might be interested in https://protists.ensembl.org/index.html as well. I don't know how up to date an…
Comment: Tools that output positions of matching kmers
by
gil.hornung
▴ 100
Thanks, I thought there is a simpler and quicker option...
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