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121,542 results • Page
1 of 2431
Sort: Rank
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0
votes
0
replies
49
views
calculating coverage of gene in my metagenomes with samtools
samtools
depth
metagenome
coverage
5 hours ago by
lintonf
• 0
1
vote
1
reply
86
views
how to merge gbz files
vg
updated 8 hours ago by
Jouni Sirén
▴ 680 • written 10 hours ago by
lushjia
• 0
843
votes
170
replies
182k
views
112 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 10 weeks ago by
Biostar
3.6k • written 8.6 years ago by
Istvan Albert
102k
1
vote
1
reply
82
views
plotting read length distribution of Single End data
read_length_distribution
single_end_sequencing
WGS
6 hours ago by
Meghan.T
▴ 10
4
votes
1
reply
131
views
Preranked GSEA permutation
GSEA
updated 9 hours ago by
ATpoint
88k • written 1 day ago by
as823jk
• 0
0
votes
2
replies
143
views
why bwa-mem only return one read with pair-read end
sequencing
bwa-mem
updated 11 hours ago by
ATpoint
88k • written 17 hours ago by
QX
▴ 70
0
votes
1
reply
75
views
Identification problem of IDE-8 cell on culture with inverted microscope
IDE-8
updated 3 hours ago by
rfran010
★ 1.6k • written 11 hours ago by
Prashanta
• 0
0
votes
2
replies
209
views
Identifying RBP motifs overlapping exons
motifs
bedtools
RBP
updated 11 hours ago by
GenoMax
152k • written 3 days ago by
RK
• 0
0
votes
0
replies
60
views
News:
Upcoming NGS Data Analysis Courses 2025
SingleCell
RNAseq
Epigenomics
Illumina
DNAseq
13 hours ago by
ecSeq Bioinformatics
▴ 20
0
votes
1
reply
126
views
How to match clinical information with expression data in R
R
updated 20 hours ago by
Arup Ghosh
3.3k • written 20 hours ago by
py3296746920
• 0
3
votes
1
reply
310
views
Identify SNP, Indel variants from a List of FASTA sequence
SNP
updated 1 day ago by
Mark
★ 1.7k • written 5 days ago by
Trinh
▴ 10
2
votes
15
replies
684
views
Which Reference Hg38 or T2T?? Both??
Host
Removal
1 day ago by
Jon
• 0
2
votes
2
replies
171
views
Can I transduce HEK293T with Cas9 lentivirus followed by transfection with sgRNAs?
lentivirus
Transduction
CRISPR
transfection
offtopic
updated 1 day ago by
jared.andrews07
★ 19k • written 1 day ago by
louisflower1999
• 0
3
votes
3
replies
234
views
Mitochondrial annotation tool for algae
barcoding
annotation
updated 1 day ago by
Juke34
9.3k • written 1 day ago by
firefox91
• 0
0
votes
1
reply
161
views
Identifying gene outliers in a genome using composition analysis.
RSCU
composition
GC
outliers
updated 1 day ago by
GenoMax
152k • written 1 day ago by
Shakunthala Natarajan
• 0
1
vote
5
replies
274
views
Mapping to a template sequece
sequencing
21 hours ago by
QX
▴ 70
0
votes
2
replies
260
views
quality control for 16s metagenome reads
quality
metagneome
control
16s
fastp
updated 1 day ago by
GenoMax
152k • written 3 days ago by
m90
▴ 30
0
votes
2
replies
246
views
Loss of strandedness in the Illumina Strandedness Total RNA protocol
Illumina
RNA-seq
reads
stranded
updated 1 day ago by
ATpoint
88k • written 2 days ago by
Anjan
▴ 840
1
vote
3
replies
939
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
updated 1 day ago by
GenoMax
152k • written 14 months ago by
otieno43
▴ 40
0
votes
1
reply
221
views
Help using ShinyCell2 and Seurat v5 object.
shinycell
seurat
shiny
shinycell2
scRNA
updated 23 hours ago by
antonioggsousa
3.4k • written 2 days ago by
Jamie
• 0
0
votes
0
replies
138
views
News:
Machine Learning for Multi-Omics Integration at the University of Barcelona– Dec 2025
Machine-Learning
Sulti-Omics
Depp-Learning
Data-Integration
BigData
2 days ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
166
views
Compare alternative splicing patterns between human and mouse?
orthologs
rna-seq
splicing
alternative
2 days ago by
aeb
▴ 20
2
votes
6
replies
344
views
Trouble getting representatives from clustered_nr database
database
blast
2 hours ago by
Adolfo
• 0
0
votes
0
replies
146
views
FindTransferAnchors (reference prediction) vs Manual Annotations
Seurat
2 days ago by
reddyornah
• 0
3
votes
4
replies
309
views
NCBI Datasets CLI Question
ncbi-datasets
3 days ago by
Bjorn
• 0
0
votes
0
replies
168
views
Incomplete assembly in HPRC dataset
pangenome
HPRC
reference
3 days ago by
ohell
• 0
3
votes
3
replies
303
views
Joint Calling for Large Germline WGS Cohort
NGS
RAM
cohort
Genomics
WGS
updated 3 days ago by
Jeremy Leipzig
23k • written 3 days ago by
j.k3096
▴ 20
0
votes
4
replies
312
views
how shoud the phred score be intepreted?
sequencing
updated 3 days ago by
GenoMax
152k • written 3 days ago by
QX
▴ 70
0
votes
3
replies
414
views
Inherited pipeline uses RNA-seq variant calls for WASP filtering—shouldn’t it be external SNPs?
WASP
updated 2 days ago by
i.sudbery
21k • written 6 days ago by
jonas.andersson
▴ 40
0
votes
0
replies
173
views
WGCNA analysis for Proteomics data
Proteomics
WGCNA
3 days ago by
Sumit Paliwal
▴ 40
3
votes
8
replies
6.6k
views
7 follow
Cellranger count pipestance failed: The read lengths are incompatible with all the chemistries
10x
cellranger
single-cell
updated 3 days ago by
zhang
• 0 • written 3.1 years ago by
firestar
★ 1.7k
0
votes
1
reply
670
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
3 days ago by
ecSeq Bioinformatics
▴ 20
0
votes
0
replies
178
views
How to merge multiple pangenome graph files (generated by MC and PGGB)?
vg
pangenome
Minigraph-Cactus
PGGB
3 days ago by
Yao
▴ 30
1
vote
0
replies
241
views
Can iHS and XP-EHH be applied to targeted sequencing data?
sequencing
targeted
ngs
ihs
5 days ago by
slzr_
▴ 10
2
votes
3
replies
438
views
PacBio amplicon reads partially aligned using minimap2 – library or analysis issue?
PacBio
minimap2
alignment
variants
pbmm2
3 days ago by
louisflower1999
• 0
0
votes
0
replies
806
views
Job:
Biomedical Data Scientist / Systems Biologist / Omics Data Analyst / Bioinformatician / Computational Biologist (Tulane University, New Orleans, LA)
TUPulm
6 days ago by
yzhou40
• 0
0
votes
0
replies
295
views
Batch effect in codominant microsatellite data – how to correct
population-genetics
batch-effect
R
microsatellite
genotyping
6 days ago by
shervin
• 0
2
votes
3
replies
433
views
UCSC genome browser negative strand positions
Genomic
Data
Browser
UCSC
Visualization
Genome
updated 6 days ago by
Maximilian Haeussler
★ 1.8k • written 7 days ago by
ijarne
▴ 20
0
votes
1
reply
313
views
Error when computing bedtools bamtobed -bedpe
human
bedtools
libraries
illumina
bamtobed
updated 6 days ago by
ATpoint
88k • written 6 days ago by
María José
▴ 10
0
votes
9
replies
850
views
Ligand-Receptor analysis using LIANA - question about specificity
scRNA-seq
communication
cell-cell
updated 6 days ago by
Muhammad
▴ 10 • written 10 days ago by
abedkurdi10
▴ 190
2
votes
4
replies
1.3k
views
PRS calculation from two sample genotype results
prs
calculation
updated 6 days ago by
Muhammad
▴ 10 • written 6 months ago by
Arun
• 0
1
vote
16
replies
6.1k
views
PRS in UK Biobank - no covariate file and no phenotype file
UK
Biobank
PRS
3.8 years ago by
Jalil Sharif
▴ 80
40
votes
14
replies
2.7k
views
13 follow
Forum:
How do you estimate time to complete a project or task?
career
ngs
updated 6 days ago by
Анна
• 0 • written 5 months ago by
sviatoslav.kendall
▴ 990
0
votes
0
replies
250
views
News:
Introduction to Deep Learning for Biologists - online course, 3–7 November
MachineLearning
Python
deepLearning
ConvolutionalNeuralNetwork
6 days ago by
Physalia-courses
★ 2.6k
1
vote
2
replies
878
views
Running trajectory and velocity analysis with multiple samples
seurat
velocity
loom
trajectory
written 15 months ago by
gogeni5529
▴ 70
6
votes
7
replies
694
views
Weird p-value distribution on edgeR results
edgeR
pvalue-distribution
gene-expression
1 day ago by
Guillermo
▴ 30
0
votes
1
reply
321
views
NMR modelling using xplor-NIH
peptide
xplor-NIH
NMR
6 days ago by
npk107
• 0
2
votes
5
replies
491
views
PCA interpretation
chip
seq
PCA
updated 1 day ago by
ATpoint
88k • written 7 days ago by
Irving
• 0
0
votes
0
replies
283
views
News:
course: Reproducibility in Bioinformatics - Only 2 seats remain!
Singularity
Git
Reproducibility
Docker
Snakemake
7 days ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
271
views
Annotate phylogenetic trees with bars or strips
otu
phylogenetics
R
taxonomy
metabarcoding
7 days ago by
Luca Arbore
▴ 10
121,542 results • Page
1 of 2431
Recent Votes
Answer: Preranked GSEA permutation
Answer: Preranked GSEA permutation
Answer: how to merge gbz files
Answer: plotting read length distribution of Single End data
Comment: Weird p-value distribution on edgeR results
Comment: Weird p-value distribution on edgeR results
Answer: Preranked GSEA permutation
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Comment: Trouble getting representatives from clustered_nr database
by
Adolfo
• 0
It was indeed huge, for viridiplantae we have ``` $ wc -l Viridiplantae_representative_cluster.txt 16968635 Viridiplantae_representative_…
Comment: Identification problem of IDE-8 cell on culture with inverted microscope
by
rfran010
★ 1.6k
I'm not sure this question is within the scope of the forum, so there may be better places to get an answer. Ultimately, if an adherent ce…
Answer: how to merge gbz files
by
Jouni Sirén
▴ 680
You can merge GBZ files for individual chromosomes, assuming that no node-to-segment translation was created during GBZ construction. That …
Answer: plotting read length distribution of Single End data
by
GenoMax
152k
You can't determine fragment length from single end sequencing data since you are missing information about sequence at 3'-end of that frag…
Answer: Preranked GSEA permutation
by
ATpoint
88k
From what I understand, what you describe is how the fGSEA package implements its permutation test, randomly drawing genes to get a backgro…
Answer: why bwa-mem only return one read with pair-read end
by
ATpoint
88k
I assume that you mean that per each paired-end read pair, there is only a single line of output in the BAM file. This is normal and expect…
Comment: Identifying RBP motifs overlapping exons
by
GenoMax
152k
Please edit and add the solution you found so it helps future visitors. Just saying "fixed" provides no useful information.
Answer: Identifying RBP motifs overlapping exons
by
RK
• 0
This has been fixed
Comment: Missing short indels from vcf
by
kbranger
• 0
Hi, You were right! While bcftools was sufficient for QTL, I was able to take the parent lines and original lines they were derived from a…
Comment: Trouble getting representatives from clustered_nr database
by
GenoMax
152k
Got curious about this record. It turns out that `prf` (Protein Research Foundation) record(s) actually predate GenBank. They are included …
Comment: why bwa-mem only return one read with pair-read end
by
GenoMax
152k
Have you tried name sorting the alignment file and/or viewing the alignment in IGV? Paired-end reads are not guaranteed to be next to each …
Comment: Mitochondrial annotation tool for algae
by
firefox91
• 0
Many thanks to both of you !
Comment: How to match clinical information with expression data in R
by
Arup Ghosh
3.3k
Share an excerpt of the sample names from the expression data and clinical information.
Comment: Mapping to a template sequece
by
QX
▴ 70
so I have a template with that design, where some bases are fixed, others are diverse on purpose. However, those reads that generated from …
Comment: Mapping to a template sequece
by
michael.ante
★ 4.0k
Without more details about your problem, I'd suggest you to look at other amplicon-analysis workflows like [dada2][1] or [qiime2][2]. These…
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