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122,231 results • Page
7 of 2445
Sort: Rank
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Votes
Replies
4
votes
5
replies
959
views
6 follow
Forum:
Idea: Cloud-based genome annotation & visualization tool — looking for feedback
genome-annotation
software-development
visualization
4 weeks ago by
GeneScope
• 0
3
votes
4
replies
763
views
Access to bulk FAST5 datasets
ONT
sampling
nanopore
adaptive
7 days ago by
matt_arnold_bio
• 0
5
votes
6
replies
906
views
SNP annotation tool options (alternatives to ANNOVAR)
annotation
ANNOVAR
updated 4 weeks ago by
Nicole
▴ 50 • written 5 weeks ago by
shpak.max
▴ 70
1
vote
3
replies
645
views
Job:
Database developer to University of Copenhagen
developer
programming
Database
bioinformatics
Python
4 weeks ago by
info
▴ 90
2
votes
3
replies
783
views
Differential gene expression analysis between species using methods involving read alignment to transcriptome
RNA-seq
kallisto
tximp
DEGs
4 weeks ago by
arsala521
▴ 60
3
votes
3
replies
636
views
Low busco scores after annotating genome using same model as another species in genus
braker
genome
annotation
braker3
29 days ago by
Wilber0x
▴ 70
0
votes
2
replies
562
views
GurobiError in COMPASS: "Element 47 of a double array is Nan or Inf" despite clean input data
COMPASS
scRNAseq
Metabolism
Gurobi
4 weeks ago by
Binghong
▴ 40
4
votes
6
replies
901
views
Read group addition order in RNA-seq short variant discovery (SNPs + Indels)
rnaseq
variantcalling
addreadgroups
gatk
updated 4 weeks ago by
GenoMax
154k • written 4 weeks ago by
iamsmor
• 0
1
vote
0
replies
432
views
Job:
Applications Now Open – Summer 2026 Teaching Opportunities [SSPI]
temporary
STEM
summer
jobs
paid
4 weeks ago by
Emaly
▴ 10
2
votes
5
replies
3.8k
views
FastQC contaminant line error
FastQC
contaminant
error
updated 12 days ago by
Kevin Blighe
★ 90k • written 9.1 years ago by
jmah
▴ 30
0
votes
0
replies
396
views
News:
Genomic Data Visualisation with R (online course)
R
Genomics
DataVisualisation
5 weeks ago by
Physalia-courses
★ 2.7k
0
votes
5
replies
2.3k
views
Issue with Downloading Genomes from BVBRC
BVBRC
genomes
updated 5 weeks ago by
GenoMax
154k • written 16 months ago by
ryanmaroun3
• 0
0
votes
0
replies
385
views
News:
Learn how to make Single Cell Data Analysis easy- Upcoming Webinars
spatialtranscriptomics
singlecell
dataanalysis
pathwayanalysis
5 weeks ago by
Nicole
▴ 50
2
votes
3
replies
594
views
Gene or Exon Counts for DESeq2 in rRNA-Depleted RNA-seq?
rRNA
depletion
gene
exon
updated 5 weeks ago by
GenoMax
154k • written 5 weeks ago by
n@4j
• 0
9
votes
7
replies
1.1k
views
Falsely high busco score after genome annotation with braker
braker
genomeannotation
genome
annotation
braker3
updated 5 weeks ago by
GenoMax
154k • written 5 weeks ago by
Wilber0x
▴ 70
2
votes
0
replies
736
views
Forum:
Recursive reasoning for variant pathogenicity: early results show promise, need domain expertise to push further
variant-calling
deep-learning
clinvar
pathogenicity-prediction
machine-learning
5 weeks ago by
Pranava
▴ 30
4
votes
5
replies
1.1k
views
Clustering with other data type than scRNA-seq using Seurat
countmatrix
scrna-seq
methylation
seurat
updated 5 weeks ago by
Mensur Dlakic
★ 30k • written 5 weeks ago by
npont
▴ 20
1
vote
1
reply
590
views
Is it reasonable to keep only protein-coding genes in highly variable features in scRNA-seq data?
scRNA-seq
updated 5 weeks ago by
ATpoint
90k • written 5 weeks ago by
carolofharvest
▴ 50
2
votes
11
replies
2.0k
views
Tool:
Brave: Bioinformatics Reactive Analysis and Visualization Engine
Docker
R
Nextflow
Python
React
updated 5 weeks ago by
Istvan Albert
103k • written 7 weeks ago by
Edward
• 0
0
votes
2
replies
740
views
Some doubts about GWAS data and MR
MR
GWAS
updated 5 weeks ago by
Corentin
▴ 660 • written 5 weeks ago by
kanttt16
• 0
0
votes
1
reply
571
views
Bedmethyl to vcf
vcf
bedmethyl
updated 5 weeks ago by
oneillkza
▴ 110 • written 5 weeks ago by
Romualdo
• 0
4
votes
0
replies
826
views
Herald:
The Biostar Herald for Thursday, October 23, 2025
herald
5 weeks ago by
Biostar
3.7k
2
votes
1
reply
639
views
Repetitive regions annotation
RepeatModeler
RepeatMasker
updated 5 weeks ago by
samuel.a.odonnell
▴ 650 • written 5 weeks ago by
frarodmar17
• 0
2
votes
4
replies
1.2k
views
Choosing enrichment analysis tool
DAVID
Metascape
Enrichr
5 weeks ago by
Marlene
• 0
9
votes
10
replies
1.6k
views
Making more complex design in limma removes significant genes
limma
updated 5 weeks ago by
Gordon Smyth
★ 8.6k • written 6 weeks ago by
marek.gierlinski
▴ 50
0
votes
0
replies
484
views
News:
Genome Assembly Using PacBio and Hi-C course - online, 10–14 November
PacBio
HiFi
LongReads
GenomeAssembly
HIC
5 weeks ago by
Physalia-courses
★ 2.7k
4
votes
4
replies
860
views
scRNAseq analysis with a few samples (n=2 per group)
DEG
analysis
scRNA-seq
samples
updated 5 weeks ago by
ATpoint
90k • written 5 weeks ago by
Song
▴ 10
2
votes
4
replies
863
views
Redundant Genes in scRNA-seq Subclusters
immunology
single
cell
26 days ago by
s
• 0
2
votes
4
replies
899
views
gfortran for phyloseq in R
ade4
RcppArmadillo
gfortran
phyloseq
updated 4 weeks ago by
colindaven
8.1k • written 6 weeks ago by
mewgia
• 0
0
votes
0
replies
424
views
Tool:
Xpress-Bio: a lean, real-time Bioinformatics runtime with IGV.js & BLAST integration
web-socket
visualization
sequence
genomics
server-sent
5 weeks ago by
Ibrahim Tanyalcin
★ 1.2k
2
votes
16
replies
6.3k
views
6 follow
bowtie (1) 0% alignment on paired-end RNAseq data
bowtie
RNA-Seq
alignment
miRNA
updated 5 weeks ago by
ATpoint
90k • written 6.6 years ago by
gulamaltab
• 0
1
vote
3
replies
1.6k
views
Constructing a bread wheat pangenome graph using PGGB: per-chromosome vs. whole-genome approach and integration of assemblies from different sequenci…
pangenome
structural-variation
bread-wheat
PGGB
updated 5 weeks ago by
samuel.a.odonnell
▴ 650 • written 5 weeks ago by
Sony Nguyen
▴ 20
0
votes
0
replies
426
views
News:
UConn Virtual Bioinformatics Workshops
Training
ATAC-seq
Workshop
ChIP-seq
Genomics
6 weeks ago by
bioadam
• 0
0
votes
0
replies
378
views
News:
Bioinformatic Analysis of Transposable Elements - online course
Transcriptomics
GenomeAssembly
ManualCuration
TransposableElements
6 weeks ago by
Physalia-courses
★ 2.7k
1
vote
7
replies
1.2k
views
MOuse Testis Enhancer region
enhancer
updated 6 weeks ago by
i.sudbery
22k • written 6 weeks ago by
Bioinformatics_16
• 0
2
votes
7
replies
1.2k
views
reference-guided assembly tools for short read data?
genomics
assembly
updated 6 weeks ago by
Ram
45k • written 6 weeks ago by
Hani
• 0
1
vote
7
replies
885
views
Forum:
A dentist trying to shift his career
how-to
dentistry
bioinformatics
data
science
updated 6 weeks ago by
ATpoint
90k • written 6 weeks ago by
Abdelrahman
• 0
5
votes
4
replies
911
views
Limma t and F-tests: should the degrees of freedom correspond to all samples if only some treatments are used in contrast?
limma
Proteomics
updated 6 weeks ago by
Gordon Smyth
★ 8.6k • written 6 weeks ago by
Sarah
• 0
3
votes
6
replies
849
views
missing values for batch in RNA-seq data
RNA-seq
limma
deseq
batch-effect
batch
6 weeks ago by
donan
• 0
1
vote
1
reply
557
views
Ensembl API - Global Ortholog Alignments
Alignment
API
Ensembl
Orthologs
updated 6 weeks ago by
GenoMax
154k • written 6 weeks ago by
Nikit
• 0
4
votes
4
replies
840
views
Diffbind or DESEQ2 Chipseq data
DESEQ2
Diffbind
Chip-Seq
updated 5 weeks ago by
james.hawley
▴ 100 • written 6 weeks ago by
Irene
▴ 10
0
votes
2
replies
5.5k
views
News:
::FINAL Call:: Only 3 seats left - NGS Epigenomics Data Analysis (November 3-5 in Munich) - BS-Seq, ChIP-Seq, ATAC-Seq, ...
chip-seq
atac-seq
bs-seq
6 weeks ago by
ecSeq Bioinformatics
▴ 20
4
votes
4
replies
1.7k
views
Forum:
layoffs in biotech
layoff
biotech
updated 6 weeks ago by
cfos4698
★ 1.2k • written 13 months ago by
Dara
▴ 10
1
vote
1
reply
1.4k
views
Drug-Drug similarity database
drug
drug_similarity
ddi
updated 6 weeks ago by
ardigen
• 0 • written 5.5 years ago by
carlos_marchi
▴ 90
0
votes
0
replies
399
views
News:
Nanopore Direct RNA Sequencing (RNA004)
Transcriptomics
Nanopore
RNAseq
6 weeks ago by
Physalia-courses
★ 2.7k
1
vote
2
replies
768
views
Reference VCF with "chr" contigs instead of "number"
VCF
reference-genome
updated 6 weeks ago by
Ram
45k • written 6 weeks ago by
GPR
▴ 390
3
votes
1
reply
582
views
DE analysis in nascent RNA Seq based on intron sequences
Normalization
DESeq2
RNA-Seq
Nascent
updated 6 weeks ago by
dsull
★ 7.8k • written 6 weeks ago by
MolGeek
▴ 80
4
votes
4
replies
1.1k
views
SNP calling ONT sequenced files
ONT
SNPs
updated 6 weeks ago by
Момчил
▴ 10 • written 7 weeks ago by
blur
▴ 280
0
votes
0
replies
514
views
News:
RAD-seq Data Analysis - online course
Phylogenomics
RADseq
Genomics
Population
Stacks
6 weeks ago by
Physalia-courses
★ 2.7k
7
votes
8
replies
2.9k
views
Is there a way to produce/convert nhmmer output to a bed file?
bed
nhmmer
updated 6 weeks ago by
colindaven
8.1k • written 5.1 years ago by
jamie.pike
▴ 90
122,231 results • Page
7 of 2445
Recent Votes
Answer: Feature Counts vs Salmon quantification
Answer: Chip-seq analysis Diffbind
Question about variant calling method using pangenome-graph
Comment: SyntaxError in file /snakefile, line 22: invalid decimal literal: None
Answer: Is this Rosalind inspired project actually useful?
Answer: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
Comment: How to normalize the intensity of bigwig files based on a group of house-keeping
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ramiro.barrantes
▴ 60
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15k
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★ 19k
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Recent Replies
Comment: "sortmerna" quitting early--is this is a memory issue?
by
Andrew
• 0
Do you mean the maximum % RAM usage it reaches right before the moment it quits? As I said, the computer has 16 GB RAM, and the run fails w…
Comment: Chip-seq analysis Diffbind
by
Irene
▴ 10
Thank you very much for always answering my doubts and questions. I truly value and appreciate it because it helps me understand the result…
Comment: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
by
firefox91
▴ 10
Many thanks !
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
GenoMax
154k
> I have access to both the raw reads and the previously assembled transcriptome submitted to TSA. and > I am trying to determine wheth…
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
dthorbur
★ 3.2k
There are a few factors to consider: **The quality of the existing reference.** If there is a high quality chromosome level assembly,…
Comment: "sortmerna" quitting early--is this is a memory issue?
by
colindaven
8.1k
Pls add the output and your system (especially RAM), no one here can guess.
Answer: Power calculations for differentially methylated DNA samples from sequencing
by
colindaven
8.1k
There are software packages for power analysis such as https://academic.oup.com/bioinformaticsadvances/article/5/1/vbaf150/8173951.
Comment: Data integration single cell using Harmony
by
Arup Ghosh
3.5k
Run QC for each sample separately, then merge run SCTransform, PCA, then Harmony, UMAP, FindNeighbors and FindClusters.
Comment: Data integration single cell using Harmony
by
_deb
• 0
Thank you for the quick answer. I still have a doubt. It would be better to pre-process each sample separately (*filtering, SCTransform…
Comment: Issue while running Kenddata.
by
rana.elromh
• 0
I checked the memory before executing this command. I made a bash script on Ubuntu to run it on 15 folders. But, this problem happened in f…
Comment: Prokka output genes clusterization by function
by
Mensur Dlakic
★ 30k
Many proteins have multiple domains, and are correctly classified with multiple KO numbers. That's not a bug in `kofam_scan` but rather a r…
Comment: mapping sequences on specific region of bacteria genome
by
samuel.a.odonnell
▴ 650
If you want to visualise the mapping; take a look at using IGV. It just requires the genome you used to map the reads and the BAM output (n…
Comment: Prokka output genes clusterization by function
by
shevch2009
▴ 20
Thanks, I had completely forgotten that METABOLIC works with protein sequences. That will work :) I was just trying to figure out how peop…
Answer: Prokka output genes clusterization by function
by
Mensur Dlakic
★ 30k
It is easy to install `kofam_scan` and get the output: https://github.com/takaram/kofam_scan What is the impediment to using METABOLI…
Answer: Manual corrections for allele mismatches
by
curious
▴ 900
take a look at thomas winkler's stuff: https://www.nature.com/articles/nprot.2014.071
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