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121,561 results • Page
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Sort: Rank
Rank
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Votes
Replies
2
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3
replies
149
views
Understanding NCBI vs ENA data
ENA
NCBI
SRA
54 minutes ago by
wes
▴ 90
0
votes
2
replies
91
views
Job:
Assistance running population specific hapibd
ancestry
haplotype
IBD
updated 40 minutes ago by
cmdcolin
★ 4.2k • written 7 hours ago by
CJ169
• 0
0
votes
0
replies
47
views
A question about model matrix and contrast
makeContrasts
limma
7 hours ago by
jkim
▴ 200
2
votes
1
reply
80
views
Empty result using enrichGO
clusterProfiler
updated 4 hours ago by
GenoMax
152k • written 11 hours ago by
Chris
▴ 360
843
votes
170
replies
182k
views
112 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 11 weeks ago by
Biostar
3.6k • written 8.6 years ago by
Istvan Albert
102k
2
votes
1
reply
5.7k
views
Convert ct file to dot bracket format
RNA
structure
updated 9 hours ago by
zahraniasari.2023
• 0 • written 8.6 years ago by
abdullahrenk
▴ 30
0
votes
2
replies
884
views
News:
Hands-On Workshop - Next-Generation Sequencing Data Analysis: A Practical Introduction (September 10-12, 2025 in Berlin, Germany)
Workshop
RNA-Seq
Illumina
VariantCalling
DNA-Seq
11 hours ago by
ecSeq Bioinformatics
▴ 20
0
votes
0
replies
50
views
Is it possible to perform XP-EHH and iHS on targeted sequencing data without a .map file?
ngs
ihs
analysis
selection
sequencing
14 hours ago by
slzr_
▴ 10
0
votes
0
replies
62
views
Discrepancy in RNA editing calls between STAR and Subjunc aligners using JACUSA2
jacusa2
rnaseq
subjunc
star
rsubread
16 hours ago by
thomas.heigl.ibk
• 0
1
vote
1
reply
100
views
RNA-Seq paired-end datasets
paired-end
RNA-seq
Bioinformatic
updated 17 hours ago by
Matthias Zepper
5.1k • written 17 hours ago by
AIMAR
▴ 40
0
votes
0
replies
102
views
News:
Course: Introduction to CRISPR
GenomeEditing
CRISPR
Evolution
1 day ago by
Physalia-courses
★ 2.6k
1
vote
2
replies
281
views
Best strategy for comparing cell-type composition between disease and healthy groups in single-cell RNA-seq data
Single_cell
14 hours ago by
城玮
• 0
1
vote
4
replies
242
views
RNA-seq assigned alignments
paired-end
STAR
RNA-seq
mapping
single-end
updated 1 day ago by
jaro.slamecka
▴ 270 • written 1 day ago by
Manko47
▴ 10
0
votes
1
reply
175
views
Obtain Common SNPS for Mouse Genome
mouse
SNPs
updated 1 day ago by
GenoMax
152k • written 1 day ago by
joe_genome
▴ 60
1
vote
3
replies
331
views
How do you clean GEO metadata before downstream analysis?
geo
updated 1 day ago by
yura.grabovska
▴ 800 • written 3 days ago by
Alba
• 0
0
votes
1
reply
174
views
Seeking high-quality curated metabolic models with time-resolved flux data for sonification project
metabolism
sonification
networks
updated 2 days ago by
Mensur Dlakic
★ 29k • written 2 days ago by
omereilam1
• 0
0
votes
0
replies
125
views
Standard way to represent represent indel (insertion or deletion) alleles within a haplotype
haplotypes
indels
haploview
2 days ago by
Mwangana
• 0
1
vote
1
reply
240
views
lovis4u Configuration
graph
lovis4u
genomics
updated 2 days ago by
GenoMax
152k • written 3 days ago by
NIkita
• 0
1
vote
1
reply
271
views
Tool:
Tool to clean GEO metadata
GEO
metadata
updated 1 day ago by
yura.grabovska
▴ 800 • written 3 days ago by
Alba
• 0
1
vote
2
replies
522
views
WGBS Analysis with 1 control sample and 6 disease samples
one
WGBS
sample
updated 2 days ago by
ATpoint
88k • written 14 days ago by
Cassandra
▴ 10
0
votes
2
replies
536
views
How to extract gene list from GEO dataset in R
coding
beginner
question
r
updated 3 days ago by
Shohel
• 0 • written 14 days ago by
decorus
• 0
0
votes
6
replies
501
views
RNA seq strandedness (reverse-strand)
seq
reverse-stranded
strand
RNA
2 days ago by
ZuelTech
• 0
0
votes
0
replies
191
views
TFs and enrichment analysis for TRAP sequencing
TRAP
4 days ago by
Genesis
• 0
0
votes
2
replies
298
views
Extract track data from "search by region" feature on ENCODE
Encode
1 day ago by
AlienPumpkinPie
• 0
9
votes
8
replies
972
views
Weird p-value distribution on edgeR results
edgeR
pvalue-distribution
gene-expression
updated 4 days ago by
dariober
15k • written 12 days ago by
Guillermo
▴ 30
1
vote
3
replies
332
views
Draw GO tree for some GO ids with coloring
enrichment
GO
4 days ago by
boczniak767
▴ 880
2
votes
4
replies
2.7k
views
Extract transcript fasta using gff
fasta
gff
updated 4 days ago by
cmdcolin
★ 4.2k • written 4.1 years ago by
boczniak767
▴ 880
0
votes
0
replies
213
views
Understanding MAG completeness and contig composition in metagenomic bins
data
shotgun
4 days ago by
shevch2009
▴ 20
1
vote
4
replies
1.2k
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
updated 4 days ago by
Jasim
• 0 • written 15 months ago by
otieno43
▴ 40
0
votes
1
reply
271
views
calculating coverage of gene in my metagenomes with samtools
samtools
depth
metagenome
coverage
updated 4 days ago by
Pierre Lindenbaum
166k • written 5 days ago by
lintonf
• 0
2
votes
1
reply
273
views
how to merge gbz files
vg
updated 5 days ago by
Jouni Sirén
▴ 690 • written 5 days ago by
lushjia
• 0
2
votes
1
reply
262
views
plotting read length distribution of Single End data
read_length_distribution
single_end_sequencing
WGS
5 days ago by
Meghan.T
▴ 10
4
votes
1
reply
317
views
Preranked GSEA permutation
GSEA
updated 5 days ago by
ATpoint
88k • written 6 days ago by
as823jk
• 0
2
votes
2
replies
409
views
why bwa-mem only return one read with pair-read end
sequencing
bwa-mem
updated 3 days ago by
rfran010
★ 1.6k • written 5 days ago by
QX
▴ 70
0
votes
2
replies
288
views
Identification problem of IDE-8 cell on culture with inverted microscope
IDE-8
offtopic
updated 18 hours ago by
i.sudbery
21k • written 5 days ago by
Prashanta
• 0
0
votes
2
replies
380
views
Identifying RBP motifs overlapping exons
motifs
bedtools
RBP
updated 5 days ago by
GenoMax
152k • written 8 days ago by
RK
• 0
0
votes
0
replies
226
views
News:
Upcoming NGS Data Analysis Courses 2025
SingleCell
RNAseq
Epigenomics
Illumina
DNAseq
5 days ago by
ecSeq Bioinformatics
▴ 20
0
votes
1
reply
291
views
How to match clinical information with expression data in R
R
updated 5 days ago by
Arup Ghosh
3.3k • written 5 days ago by
py3296746920
• 0
3
votes
1
reply
464
views
Identify SNP, Indel variants from a List of FASTA sequence
SNP
updated 5 days ago by
Mark
★ 1.7k • written 10 days ago by
Trinh
▴ 10
2
votes
15
replies
974
views
Which Reference Hg38 or T2T?? Both??
Host
Removal
6 days ago by
Jon
• 0
3
votes
2
replies
359
views
Can I transduce HEK293T with Cas9 lentivirus followed by transfection with sgRNAs?
lentivirus
Transduction
CRISPR
transfection
offtopic
updated 6 days ago by
jared.andrews07
★ 19k • written 6 days ago by
louisflower1999
• 0
3
votes
3
replies
429
views
Mitochondrial annotation tool for algae
barcoding
annotation
updated 6 days ago by
Juke34
9.3k • written 6 days ago by
firefox91
• 0
1
vote
2
replies
387
views
Identifying gene outliers in a genome using composition analysis.
RSCU
composition
GC
outliers
updated 6 days ago by
GenoMax
152k • written 6 days ago by
Shakunthala Natarajan
• 0
1
vote
5
replies
486
views
Mapping to a template sequece
sequencing
5 days ago by
QX
▴ 70
0
votes
2
replies
417
views
quality control for 16s metagenome reads
quality
metagneome
control
16s
fastp
updated 6 days ago by
GenoMax
152k • written 8 days ago by
m90
▴ 30
0
votes
2
replies
408
views
Loss of strandedness in the Illumina Strandedness Total RNA protocol
Illumina
RNA-seq
reads
stranded
updated 6 days ago by
ATpoint
88k • written 7 days ago by
Anjan
▴ 840
0
votes
1
reply
391
views
Help using ShinyCell2 and Seurat v5 object.
shinycell
seurat
shiny
shinycell2
scRNA
updated 5 days ago by
antonioggsousa
3.4k • written 7 days ago by
Jamie
• 0
0
votes
0
replies
322
views
News:
Machine Learning for Multi-Omics Integration at the University of Barcelona– Dec 2025
Machine-Learning
Sulti-Omics
Depp-Learning
Data-Integration
BigData
7 days ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
309
views
Compare alternative splicing patterns between human and mouse?
orthologs
rna-seq
splicing
alternative
7 days ago by
aboll
▴ 20
2
votes
6
replies
564
views
Trouble getting representatives from clustered_nr database
database
blast
5 days ago by
Adolfo
• 0
121,561 results • Page
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Recent Votes
Comment: Understanding NCBI vs ENA data
Answer: Empty result using enrichGO
Answer: Empty result using enrichGO
Answer: how to merge gbz files
Comment: Troubleshooting a REGENIE sex-stratified GWAS
Answer: RNA-Seq paired-end datasets
Comment: why bwa-mem only return one read with pair-read end
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Recent Replies
Comment: Assistance running population specific hapibd
by
cmdcolin
★ 4.2k
I am not an expert at this by any means, but managed to run hap-ibd on some sample data recently. I was attempting to learn more about "tri…
Answer: Understanding NCBI vs ENA data
by
wes
▴ 90
How can I ensure that the subread file is free of PacBio adapter contamination, apart from checking with FastQC? Although the FastQC result…
Comment: Understanding NCBI vs ENA data
by
wes
▴ 90
Thanks for pointing me to check their checksums.
Comment: Assistance running population specific hapibd
by
GenoMax
152k
This forum is not really set up to connect with bioinformatics analysts for requests such as this. You may want to explore a site like upwo…
Answer: Empty result using enrichGO
by
jared.andrews07
★ 19k
No results are meeting the significance thresholds set by `enrichGO`.
Answer: Hands-On Workshop - Next-Generation Sequencing Data Analysis: A Practical Introd
by
ecSeq Bioinformatics
▴ 20
Last Call for this event!
Comment: Best strategy for comparing cell-type composition between disease and healthy gr
by
城玮
• 0
Thank you very much for your helpful suggestion. Including the mouse of origin in the design formula makes a lot of sense, and I appreciate…
Answer: RNA-Seq paired-end datasets
by
Matthias Zepper
5.1k
There are many. Just go to [GEO Data Sets][1] and enter something like `("rats"[MeSH Terms] OR "Rattus norvegicus"[Organism]) AND ("gse"[Fi…
Comment: Identification problem of IDE-8 cell on culture with inverted microscope
by
i.sudbery
21k
This post does not fit the theme of this forum.
Comment: Understanding NCBI vs ENA data
by
i.sudbery
21k
Both places should have checksums available - you could look if they were the same.
Comment: RNA-seq assigned alignments
by
jaro.slamecka
▴ 270
To reiterate one of GenoMax's questions, is the new sequencing provider making the libraries for you? If so, have they by any chance used r…
Answer: Best strategy for comparing cell-type composition between disease and healthy gr
by
jared.andrews07
★ 19k
I'd recommend reading the [differential abundance testing chapter](https://bioconductor.org/books/3.21/OSCA.multisample/differential-abunda…
Comment: How do you clean GEO metadata before downstream analysis?
by
yura.grabovska
▴ 800
They did make a [Tool post originally](https://www.biostars.org/p/9613596), but still phrased it as something they just came across rather …
Comment: How do you clean GEO metadata before downstream analysis?
by
jared.andrews07
★ 19k
Agreed, just make a "Tool" post if you want to spread the word about it. People tend to take those much better than these weak attempts at…
Comment: RNA-seq assigned alignments
by
GenoMax
152k
Since you have decided to move to a new sequence provider that decision is for economic reasons and not scientific, so not much to think ab…
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