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0 votes
3 replies
1.4K views
deconvolution of spatial transcriptome
deconvolution spatial transcriptome
updated by mmorillo • mmorillo • written by Omics data mining Omics data mining
0 votes
0 replies
59 views
PSMC without bootstrap and with bootstrap give me different temporal resolutions
psmc
written by André Pereira • André Pereira
0 votes
2 replies
859 views
PySCENIC - Running on a single TF?
grn transcription_factor scenic transcriptomics
updated by Arup Ghosh Arup Ghosh • written by joshua.rubin • joshua.rubin
1 vote
0 replies
87 views
DESeq2 pseudobulk design for G+ vs G- cells within scRNA-seq clusters
single-cell deseq2 pseudobulk scrnaseq
written by ashenflower • ashenflower
1 vote
0 replies
75 views
News: Single Cell & RNA-seq certification course- Registration now open
cell rnaseq bulkrnaseq certification single
written by Nicole • Nicole
0 votes
3 replies
206 views
How do you set the GWAS threshold?
gwas rna-seq threshold snp
written by CaERu _no_ korokoro • CaERu _no_ korokoro
2 votes
0 replies
136 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 • ecSeq Bioinformatics
0 votes
1 reply
143 views
Proper integration of single cell datasets and issues with SCTransform hogging memory
integration data seurat sctransform
updated by ATpoint ATpoint • written by Trivas • Trivas
0 votes
1 reply
85 views
Issues with the allele call using chewbbaca for cgMLST
cgmlst allele chewbbaca calling
updated by michael.ante michael.ante • written by Madhusudan • Madhusudan
1 vote
2 replies
215 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 • felixnaghi9
1 vote
0 replies
129 views
News: online course: Genomic Data Visualisation with Python
genomicdata datavisualisation genomics python
written by Physalia-courses Physalia-courses
0 votes
4 replies
374 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 manaswwm • written by Business • Business
0 votes
0 replies
112 views
Job: BBE Director of Research Operations
job operations opening research
written by Fred Hutch (Recruiting) Fred Hutch (Recruiting)
0 votes
3 replies
368 views
bigwigAverage
deeptools
updated by GenoMax GenoMax • written by dana.segal • dana.segal
0 votes
8 replies
512 views
Optimizing GROMACS MD performance and reducing queue time on HPC (Slurm cluster)
md hpc queue
written by DAUNTLESS • DAUNTLESS
0 votes
2 replies
260 views
Moving away from Seurat/Signac
signac seurat scrnaseq
written by yura.grabovska • yura.grabovska
0 votes
2 replies
211 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 • danielpintard
0 votes
2 replies
252 views
Tool/ method for promoter confidence prediction.
eukaryote confidence promoter plant
written by Shakunthala Natarajan • Shakunthala Natarajan
0 votes
1 reply
100 views
Construction of nomogram on a small sample size
nomogram
updated by Ram Ram • written by brain_eater • brain_eater
0 votes
0 replies
109 views
PySCENIC - Confusion about discrepant results
gene_regulatory_network scenic scrna
written by jdru • jdru
0 votes
0 replies
61 views
Bayesass confidence interval calculation
ci bayesass significant
written by 296cfd90 • 296cfd90
0 votes
6 replies
3.2K views
Allele Calling with chewBBaCA
wgmlst cgmlst mlst chewbbaca allele calling
updated by GenoMax GenoMax • written by davidmaimoun • davidmaimoun
5 votes
15 replies
7.2K views
Forum: Nextflow and self-made pipelines opinion
nextflow pipeline data-analysis
updated by dariober dariober • written by karlaarz • karlaarz
2 votes
0 replies
144 views
Tool: slmtop — an htop-like terminal dashboard for Slurm clusters
top htop slurm hpc
written by Dreamer • Dreamer
0 votes
3 replies
770 views
De novo transcriptome assembly (Trinity) with heavy fungal contamination in fruit/flower samples
de-novo-assembly contamination trinity
updated by Dunois • Dunois • written by soundslikedaisy • soundslikedaisy
0 votes
3 replies
349 views
Increasing automation in Bioinformatics
galaxy braker automation
updated by shelkmike shelkmike • written by thrivenow • thrivenow
0 votes
2 replies
268 views
Seurat pseudobulk DE analysis
de pseudobulk seurat sctransform singlecell
updated by nmabbasi • nmabbasi • written by _deb • _deb
0 votes
1 reply
433 views
lncRNA prediction problem
lncrna
updated by colindaven colindaven • written by Anurag • Anurag
0 votes
7 replies
810 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 Gordon Smyth • written by fnepo • fnepo
0 votes
3 replies
297 views
Can I merge fastq files from different runs?
rnaseq
updated by Ram Ram • written by bioinfo • bioinfo
0 votes
3 replies
281 views
Filtering and dealing with multiallelic sites -- variant calling
variant genome snp bcftools alleles
updated by Istvan Albert Istvan Albert • written by ggio • ggio
0 votes
4 replies
502 views
How to disable FAST5 output and generate only POD5 in Nanopore?
nanopore
written by Kevin • Kevin
0 votes
0 replies
67 views
News: Online course - Ancient DNA Metagenomics - 4–6 May
ancientdna adna metagenomics
written by Physalia-courses Physalia-courses
0 votes
4 replies
333 views
ERROR: agat_sp_compare_two_BUSCOs.pl
agat annotation assembly genome
updated by Mensur Dlakic Mensur Dlakic • written by thrivenow • thrivenow
1 vote
4 replies
721 views
Looking for opportunities
internship opportunity advice jobs
updated by james • james • written by mustafa.kpn • mustafa.kpn
0 votes
4 replies
487 views
Forum: Transition from wet-lab to computational biology: A Seocnd MSc or Direct PhD?
bioinformatics career computational-biology masters phd
updated by james • james • written by Md • Md
0 votes
1 reply
744 views
problem with SPADE3.0 and our data
spade3.0 error
updated by Michael Dondrup Michael Dondrup • written by anne.claire.duchez • anne.claire.duchez
1 vote
5 replies
6.2K views
How to polarize ancestral versus derived alleles?
next-gen snp
updated by jena • jena • written by Alice Alice
0 votes
2 replies
886 views
Is it possible to highlight specific regions in the UCSC browser?
highlight browser ucsc regions
updated by Alex Reynolds Alex Reynolds • written by _quantum_girl_ • _quantum_girl_
2 votes
5 replies
930 views
Code Review: Nextflow pipeline for phage-bacteria assembly from Nanopore data
nanopore nextflow code-review phage assembly
written by eyaggelia146 • eyaggelia146
0 votes
2 replies
819 views
Spatial Transcriptomics: Analysis and differential expression across two slides
spatial_transcriptomics seurat r
updated by Bastien Hervé Bastien Hervé • written by Vanish007 • Vanish007
1 vote
2 replies
521 views
super enhancer analysis
transcriptomics superenhancer
written by jaze • jaze
0 votes
4 replies
2.5K views
How to translate HIV-1 gag-pol sequences?
gene sequence
updated by Pierre Lindenbaum Pierre Lindenbaum • written by andres.becerra • andres.becerra
0 votes
1 reply
446 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 i.sudbery • written by mahsa80.mm • mahsa80.mm
0 votes
1 reply
702 views
Can IgG-Control from Cut&Tag be used for Cut&Run?
cut-and-run cut-and-tag
updated by mubassher • mubassher • written by Aspire Aspire
0 votes
0 replies
399 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 • Cristian
0 votes
0 replies
387 views
News: (Online course) Multivariate Data Analysis with R and vegan
multivariatedata vegan r metagenomics
written by Physalia-courses Physalia-courses
0 votes
0 replies
425 views
DecontX for ambient RNA removal on 43 samples
snrnaseq rna ambient
written by kato.nauwelaers • kato.nauwelaers
0 votes
1 reply
396 views
WGCNA, the same network type in pickSoftThreshold and TOMsimilarity
wgcna
written by boczniak767 boczniak767
0 votes
12 replies
3.5K views
Tool: Brave: Bioinformatics Reactive Analysis and Visualization Engine
docker r nextflow python react
written by Edward • Edward
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