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1 vote
0 replies
94 views
DESeq2 pseudobulk design for G+ vs G- cells within scRNA-seq clusters
single-cell deseq2 pseudobulk scrnaseq
written by ashenflower 4
1 vote
0 replies
86 views
News: Single Cell & RNA-seq certification course- Registration now open
cell rnaseq bulkrnaseq certification single
written by Nicole 12
0 votes
3 replies
238 views
How do you set the GWAS threshold?
gwas rna-seq threshold snp
written by CaERu _no_ korokoro 0
2 votes
0 replies
169 views
News: NGS Data Analysis Workshops for Life Scientists – Summer School, RNA-Seq & Intro Courses
variantcalling rna-seq dna-seq illumina workshop
written by ecSeq Bioinformatics 9
0 votes
1 reply
171 views
Proper integration of single cell datasets and issues with SCTransform hogging memory
integration data seurat sctransform
updated by ATpoint 9.1K • | written by Trivas 191
0 votes
1 reply
111 views
Issues with the allele call using chewbbaca for cgMLST
cgmlst allele chewbbaca calling
updated by michael.ante 408 • | written by Madhusudan 0
1 vote
2 replies
282 views
Tool: ProteinFP: End-to-end protein function prediction from structure alone (active sites, binding pockets, PPIs, drug targets)
protein-function alphafold
written by felixnaghi9 1
1 vote
0 replies
172 views
News: online course: Genomic Data Visualisation with Python
genomicdata datavisualisation genomics python
written by Physalia-courses 281
0 votes
4 replies
467 views
Any genomics or bioinformatics lab open to reviewing a small research-only DNA traceability pilot?
metadata workflow reproducibility genomics variant-analysis
updated by manaswwm 64 • | written by Business 0
0 votes
0 replies
126 views
Job: BBE Director of Research Operations
job operations opening research
written by Fred Hutch (Recruiting) 3
0 votes
3 replies
462 views
bigwigAverage
deeptools
updated by GenoMax 16K • | written by dana.segal 0
0 votes
8 replies
622 views
Optimizing GROMACS MD performance and reducing queue time on HPC (Slurm cluster)
md hpc queue
written by DAUNTLESS 0
0 votes
2 replies
332 views
Moving away from Seurat/Signac
signac seurat scrnaseq
written by yura.grabovska 94
0 votes
2 replies
265 views
What would you like to see in a Cell-Cell Communication Database? (Brainstorming Help/Fielding suggestions)
single-cell spatial-transcriptomics scrnaseq cell-cell-communication
written by danielpintard 2
0 votes
2 replies
316 views
Tool/ method for promoter confidence prediction.
eukaryote confidence promoter plant
written by Shakunthala Natarajan 2
0 votes
1 reply
109 views
Construction of nomogram on a small sample size
nomogram
updated by Ram 4.5K • | written by brain_eater 0
0 votes
0 replies
69 views
Bayesass confidence interval calculation
ci bayesass significant
written by 296cfd90 0
0 votes
6 replies
3.3K views
Allele Calling with chewBBaCA
wgmlst cgmlst mlst chewbbaca allele calling
updated by GenoMax 16K • | written by davidmaimoun 6
5 votes
15 replies
7.3K views
Forum: Nextflow and self-made pipelines opinion
nextflow pipeline data-analysis
updated by dariober 1.5K • | written by karlaarz 12
2 votes
0 replies
190 views
Tool: slmtop — an htop-like terminal dashboard for Slurm clusters
top htop slurm hpc
written by Dreamer 6
0 votes
3 replies
1.0K views
De novo transcriptome assembly (Trinity) with heavy fungal contamination in fruit/flower samples
de-novo-assembly contamination trinity
updated by Dunois 301 • | written by soundslikedaisy 0
0 votes
3 replies
403 views
Increasing automation in Bioinformatics
galaxy braker automation
updated by shelkmike 201 • | written by thrivenow 0
0 votes
2 replies
346 views
Seurat pseudobulk DE analysis
de pseudobulk seurat sctransform singlecell
updated by nmabbasi 0 • | written by _deb 0
0 votes
1 reply
562 views
lncRNA prediction problem
lncrna
updated by colindaven 844 • | written by Anurag 0
0 votes
7 replies
1.0K views
Differential expression with limma on small microarray dataset: design, contrasts, and lack of significant genes
pca differential-expression rna limma
updated by Gordon Smyth 916 • | written by fnepo 4
0 votes
3 replies
362 views
Can I merge fastq files from different runs?
rnaseq
updated by Ram 4.5K • | written by bioinfo 19
0 votes
3 replies
341 views
Filtering and dealing with multiallelic sites -- variant calling
variant genome snp bcftools alleles
updated by Istvan Albert 10K • | written by ggio 0
0 votes
4 replies
662 views
How to disable FAST5 output and generate only POD5 in Nanopore?
nanopore
written by Kevin 0
0 votes
0 replies
87 views
News: Online course - Ancient DNA Metagenomics - 4–6 May
ancientdna adna metagenomics
written by Physalia-courses 281
0 votes
4 replies
422 views
ERROR: agat_sp_compare_two_BUSCOs.pl
agat annotation assembly genome
updated by Mensur Dlakic 3.0K • | written by thrivenow 0
1 vote
4 replies
858 views
Looking for opportunities
internship opportunity advice jobs
updated by james 0 • | written by mustafa.kpn 1
0 votes
4 replies
549 views
Forum: Transition from wet-lab to computational biology: A Seocnd MSc or Direct PhD?
bioinformatics career computational-biology masters phd
updated by james 0 • | written by Md 0
0 votes
1 reply
1.0K views
problem with SPADE3.0 and our data
spade3.0 error
updated by Michael Dondrup 5.6K • | written by anne.claire.duchez 0
1 vote
5 replies
6.7K views
How to polarize ancestral versus derived alleles?
next-gen snp
updated by jena 33 • | written by Alice 32
0 votes
2 replies
1.2K views
Is it possible to highlight specific regions in the UCSC browser?
highlight browser ucsc regions
updated by Alex Reynolds 3.6K • | written by _quantum_girl_ 8
2 votes
5 replies
1.2K views
Code Review: Nextflow pipeline for phage-bacteria assembly from Nanopore data
nanopore nextflow code-review phage assembly
written by eyaggelia146 3
0 votes
2 replies
1.1K views
Spatial Transcriptomics: Analysis and differential expression across two slides
spatial_transcriptomics seurat r
updated by Bastien Hervé 680 • | written by Vanish007 5
1 vote
2 replies
684 views
super enhancer analysis
transcriptomics superenhancer
written by jaze 1
0 votes
4 replies
2.8K views
How to translate HIV-1 gag-pol sequences?
gene sequence
updated by Pierre Lindenbaum 17K • | written by andres.becerra 0
0 votes
1 reply
588 views
Impact of polyA trimming strategies on paired-end RNA-seq data for alternative splicing analysis
alternative splicing polya trimmomatic rna-seq
updated by i.sudbery 2.3K • | written by mahsa80.mm 0
0 votes
1 reply
962 views
Can IgG-Control from Cut&Tag be used for Cut&Run?
cut-and-run cut-and-tag
updated by mubassher 2 • | written by Aspire 43
0 votes
0 replies
529 views
Tool: Updated feedback request: bioinspired genomic pipeline for FASTA validation, motif scanning, and experimental state routing
fasta python bioinformatics. opensource genomics
written by Cristian 0
0 votes
0 replies
540 views
News: (Online course) Multivariate Data Analysis with R and vegan
multivariatedata vegan r metagenomics
written by Physalia-courses 281
0 votes
1 reply
516 views
WGCNA, the same network type in pickSoftThreshold and TOMsimilarity
wgcna
written by boczniak767 89
0 votes
12 replies
3.7K views
Tool: Brave: Bioinformatics Reactive Analysis and Visualization Engine
docker r nextflow python react
written by Edward 0
0 votes
2 replies
661 views
Creating Gene Ontology (GO) plot
go analysis r
written by HajiNasrollah 0
0 votes
1 reply
524 views
Best approach for miRNA-seq when species is not in miRBase
mirbase mirna
updated by GenoMax 16K • | written by ki 0
0 votes
3 replies
637 views
Protein structure complex data-bases
e f
updated by Ram 4.5K • | written by Diksha 0
0 votes
4 replies
682 views
GEO search - automatization
geo
updated by Bharat K. C. Patel 11 • | written by pinheirofabiano 14
0 votes
1 reply
637 views
AVITI vs Illumina - Replicate Concordance
illumina sequencing. aviti amplicon
updated by GenoMax 16K • | written by adina 0
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