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121,892 results • Page
9 of 2438
Sort: Rank
Rank
Views
Votes
Replies
9
votes
8
replies
4.1k
views
Weird p-value distribution on edgeR results
edgeR
pvalue-distribution
gene-expression
updated 9 weeks ago by
dariober
15k • written 11 weeks ago by
Guillermo
▴ 30
1
vote
4
replies
3.4k
views
Draw GO tree for some GO ids with coloring
enrichment
GO
updated 7 weeks ago by
Istvan Albert
103k • written 9 weeks ago by
boczniak767
▴ 880
2
votes
4
replies
4.7k
views
Extract transcript fasta using gff
fasta
gff
updated 9 weeks ago by
cmdcolin
★ 4.3k • written 4.3 years ago by
boczniak767
▴ 880
1
vote
4
replies
1.4k
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
updated 9 weeks ago by
Jasim
• 0 • written 17 months ago by
otieno43
▴ 40
0
votes
1
reply
417
views
calculating coverage of gene in my metagenomes with samtools
samtools
depth
metagenome
coverage
updated 9 weeks ago by
Pierre Lindenbaum
166k • written 9 weeks ago by
lintonf
• 0
2
votes
1
reply
504
views
how to merge gbz files
vg
updated 9 weeks ago by
Jouni Sirén
▴ 760 • written 9 weeks ago by
lushjia
• 0
2
votes
1
reply
401
views
plotting read length distribution of Single End data
read_length_distribution
single_end_sequencing
WGS
9 weeks ago by
Meghan.T
▴ 10
4
votes
1
reply
466
views
Preranked GSEA permutation
GSEA
updated 9 weeks ago by
ATpoint
89k • written 10 weeks ago by
as823jk
• 0
2
votes
2
replies
3.4k
views
why bwa-mem only return one read with pair-read end
sequencing
bwa-mem
updated 9 weeks ago by
rfran010
★ 1.6k • written 10 weeks ago by
QX
▴ 80
0
votes
2
replies
441
views
Identification problem of IDE-8 cell on culture with inverted microscope
IDE-8
offtopic
updated 9 weeks ago by
i.sudbery
22k • written 9 weeks ago by
Prashanta
• 0
0
votes
2
replies
509
views
Identifying RBP motifs overlapping exons
motifs
bedtools
RBP
updated 9 weeks ago by
GenoMax
153k • written 10 weeks ago by
RK
• 0
0
votes
0
replies
635
views
News:
Upcoming NGS Data Analysis Courses 2025
SingleCell
RNAseq
Epigenomics
Illumina
DNAseq
9 weeks ago by
ecSeq Bioinformatics
▴ 20
0
votes
1
reply
446
views
How to match clinical information with expression data in R
R
updated 10 weeks ago by
Arup Ghosh
3.4k • written 10 weeks ago by
py3296746920
• 0
3
votes
1
reply
605
views
Identify SNP, Indel variants from a List of FASTA sequence
SNP
updated 10 weeks ago by
Mark
★ 1.7k • written 10 weeks ago by
Trinh
▴ 10
2
votes
19
replies
3.1k
views
Which Reference Hg38 or T2T?? Both??
Host
Removal
28 days ago by
Jon
• 0
3
votes
2
replies
543
views
Can I transduce HEK293T with Cas9 lentivirus followed by transfection with sgRNAs?
lentivirus
Transduction
CRISPR
transfection
offtopic
updated 10 weeks ago by
jared.andrews07
★ 19k • written 10 weeks ago by
louisflower1999
• 0
3
votes
3
replies
589
views
Mitochondrial annotation tool for algae
barcoding
annotation
updated 10 weeks ago by
Juke34
9.3k • written 10 weeks ago by
firefox91
• 0
1
vote
2
replies
2.0k
views
Identifying gene outliers in a genome using composition analysis.
RSCU
composition
GC
outliers
updated 10 weeks ago by
GenoMax
153k • written 10 weeks ago by
Shakunthala Natarajan
• 0
1
vote
5
replies
693
views
Mapping to a template sequece
sequencing
10 weeks ago by
QX
▴ 80
0
votes
2
replies
513
views
quality control for 16s metagenome reads
quality
metagneome
control
16s
fastp
updated 10 weeks ago by
GenoMax
153k • written 10 weeks ago by
m90
▴ 30
0
votes
3
replies
627
views
Loss of strandedness in the Illumina Strandedness Total RNA protocol
Illumina
RNA-seq
reads
stranded
9 weeks ago by
Anjan
▴ 840
0
votes
1
reply
529
views
Help using ShinyCell2 and Seurat v5 object.
shinycell
seurat
shiny
shinycell2
scRNA
updated 10 weeks ago by
antonioggsousa
3.4k • written 10 weeks ago by
Jamie
• 0
0
votes
0
replies
680
views
News:
Machine Learning for Multi-Omics Integration at the University of Barcelona– Dec 2025
Machine-Learning
Sulti-Omics
Depp-Learning
Data-Integration
BigData
10 weeks ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
416
views
Compare alternative splicing patterns between human and mouse?
orthologs
rna-seq
splicing
alternative
10 weeks ago by
aboll
▴ 20
2
votes
6
replies
791
views
Trouble getting representatives from clustered_nr database
database
blast
9 weeks ago by
Adolfo
• 0
0
votes
0
replies
326
views
FindTransferAnchors (reference prediction) vs Manual Annotations
Seurat
10 weeks ago by
reddyornah
• 0
3
votes
4
replies
901
views
NCBI Datasets CLI Question
ncbi-datasets
10 weeks ago by
Bjorn
• 0
0
votes
0
replies
339
views
Incomplete assembly in HPRC dataset
pangenome
HPRC
reference
10 weeks ago by
ohell
• 0
4
votes
3
replies
700
views
Joint Calling for Large Germline WGS Cohort
NGS
RAM
cohort
Genomics
WGS
updated 10 weeks ago by
Jeremy Leipzig
23k • written 10 weeks ago by
j.k3096
▴ 20
2
votes
4
replies
644
views
how shoud the phred score be intepreted?
sequencing
updated 10 weeks ago by
GenoMax
153k • written 10 weeks ago by
QX
▴ 80
0
votes
3
replies
690
views
Inherited pipeline uses RNA-seq variant calls for WASP filtering—shouldn’t it be external SNPs?
WASP
updated 10 weeks ago by
i.sudbery
22k • written 10 weeks ago by
jonas.andersson
▴ 40
0
votes
0
replies
357
views
WGCNA analysis for Proteomics data
Proteomics
WGCNA
10 weeks ago by
Sumit Paliwal
▴ 40
3
votes
8
replies
7.1k
views
7 follow
Cellranger count pipestance failed: The read lengths are incompatible with all the chemistries
10x
cellranger
single-cell
updated 10 weeks ago by
zhang
• 0 • written 3.2 years ago by
firestar
★ 1.7k
1
vote
0
replies
426
views
Can iHS and XP-EHH be applied to targeted sequencing data?
sequencing
targeted
ngs
ihs
10 weeks ago by
slzr_
▴ 10
2
votes
3
replies
771
views
PacBio amplicon reads partially aligned using minimap2 – library or analysis issue?
PacBio
minimap2
alignment
variants
pbmm2
10 weeks ago by
louisflower1999
• 0
0
votes
0
replies
1.6k
views
Job:
Biomedical Data Scientist / Systems Biologist / Omics Data Analyst / Bioinformatician / Computational Biologist (Tulane University, New Orleans, LA)
TUPulm
10 weeks ago by
yzhou40
• 0
0
votes
0
replies
469
views
Batch effect in codominant microsatellite data – how to correct
population-genetics
batch-effect
R
microsatellite
genotyping
10 weeks ago by
shervin
• 0
2
votes
3
replies
667
views
UCSC genome browser negative strand positions
Genomic
Data
Browser
UCSC
Visualization
Genome
updated 10 weeks ago by
Maximilian Haeussler
★ 1.8k • written 11 weeks ago by
ijarne
▴ 20
0
votes
1
reply
466
views
Error when computing bedtools bamtobed -bedpe
human
bedtools
libraries
illumina
bamtobed
updated 10 weeks ago by
ATpoint
89k • written 10 weeks ago by
María José
▴ 10
0
votes
9
replies
1.2k
views
Ligand-Receptor analysis using LIANA - question about specificity
scRNA-seq
communication
cell-cell
updated 10 weeks ago by
Muhammad
▴ 10 • written 11 weeks ago by
abedkurdi10
▴ 190
2
votes
4
replies
1.4k
views
PRS calculation from two sample genotype results
prs
calculation
updated 10 weeks ago by
Muhammad
▴ 10 • written 8 months ago by
Arun
• 0
1
vote
16
replies
6.6k
views
PRS in UK Biobank - no covariate file and no phenotype file
UK
Biobank
PRS
4.0 years ago by
Jalil Sharif
▴ 80
40
votes
14
replies
3.5k
views
13 follow
Forum:
How do you estimate time to complete a project or task?
career
ngs
updated 10 weeks ago by
Анна
• 0 • written 7 months ago by
sviatoslav.kendall
▴ 990
0
votes
0
replies
625
views
News:
Introduction to Deep Learning for Biologists - online course, 3–7 November
MachineLearning
Python
deepLearning
ConvolutionalNeuralNetwork
10 weeks ago by
Physalia-courses
★ 2.6k
1
vote
2
replies
954
views
Running trajectory and velocity analysis with multiple samples
seurat
velocity
loom
trajectory
written 17 months ago by
gogeni5529
▴ 80
0
votes
1
reply
398
views
NMR modelling using xplor-NIH
peptide
xplor-NIH
NMR
10 weeks ago by
npk107
• 0
2
votes
5
replies
689
views
PCA interpretation
chip
seq
PCA
updated 10 weeks ago by
ATpoint
89k • written 10 weeks ago by
Irving
• 0
0
votes
0
replies
630
views
News:
course: Reproducibility in Bioinformatics - Only 2 seats remain!
Singularity
Git
Reproducibility
Docker
Snakemake
11 weeks ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
353
views
Annotate phylogenetic trees with bars or strips
otu
phylogenetics
R
taxonomy
metabarcoding
11 weeks ago by
Luca Arbore
▴ 10
3
votes
2
replies
593
views
Identifying Long Reads Spanning Chromosomal Breakpoints
ONT
samtools
Whole-Genome
updated 11 weeks ago by
trausch
★ 2.0k • written 11 weeks ago by
Noah
▴ 30
121,892 results • Page
9 of 2438
Recent Votes
Comment: Tool 'sra_source' does not exist.
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Answer: Structural Variant identification on pangenome graphs
Answer: Stringtie de novo VS reference guided (-G)
Answer: Yeast reference-based genome assembly
How to Identify Conserved 21-mers Across TE Insertions in Drosophila?
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• 0
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Answer: GTEx sQTL v8 – annotation version used?
by
GenoMax
153k
If you click over to the `Reference` tab ( https://gtexportal.org/home/downloads/adult-gtex/reference ), it looks like they used GENCODE v.…
Comment: How to Identify Conserved 21-mers Across TE Insertions in Drosophila?
by
manikin_python9f
▴ 20
Since they are transposons, we don’t know the exact location of them. We know their sequence of insertions from repeatmasker in dm6 genome.…
Comment: Tool 'sra_source' does not exist.
by
Atefeh
• 0
Thanks for your kindness.
Comment: TCGA -derived Large RangeSummarizeExperient file
by
Tom
• 0
It works well. Thank you very much ! @atpoint
Answer: TCGA -derived Large RangeSummarizeExperient file
by
ATpoint
89k
For the end user these `DFrames` are just regular data.frames, so you can do `col_data[,c("barcode", "patient", "whatever")]` or just do `a…
Comment: magpurify errors
by
shevch2009
▴ 20
I have checked with my eyes, and I didn't find it, I have only one contig that starts with k127_458 .... but the name is different - k127_4…
Comment: Yeast reference-based genome assembly
by
Michael
56k
So, you aren't sure about the exact species? Then you might want to be careful with reference-based assembly in general. I recommend the fo…
Comment: Structural Variant identification on pangenome graphs
by
Panos
★ 1.8k
That's a very comprehensive list! Thanks for sharing! `minigraph` better suits my needs because all I need is SVs for my genomes. As far a…
Comment: Yeast reference-based genome assembly
by
amy967107
• 0
I have ~2.01 Gb of ONT data and the target genome is ~20–23 Mb (90–100× coverage). My ONT read N50 is ~3.8 kb, so contiguity may be limited…
Comment: Yeast reference-based genome assembly
by
amy967107
• 0
This is a yeast strain (probably Rhodotorula spp.) and I'm trying to assemble the entire genome from nanopore reads using a reference-based…
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by
Michael
56k
The new [hifiassm ONT][1] may be all you need for getting a good assembly. I would not recommend LRSDAY, except for its annotation part (wh…
Comment: magpurify errors
by
Mensur Dlakic
★ 30k
By the way, these errors are not unique. If you look through the `magpurify` GitHub issues, both types have been reported already. - https…
Comment: magpurify errors
by
Mensur Dlakic
★ 30k
There is absolutely no chance that a contig labeled `k127_4584534` doesn't exist in your fasta files. These names are not made up out of th…
Comment: magpurify errors
by
shevch2009
▴ 20
Strange but there are no such headers or contig names in my fasta files
Comment: replace gene names in gff file
by
Juke34
9.3k
Yes the --prefix Option exists. There is no count per chromosome. You can do it by splitting your input and analyse one sequence at a time…
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