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0 votes
0 replies
565 views
Problem at running Automlsa2
tree phylogenetic outgroup selection
updated by GenoMax GenoMax • written by muhammadirfanulislambcsir • muhammadirfanulislambcsir
0 votes
0 replies
522 views
Comparative value conversions between fold enrichment-SHINYGO and Stringdb Score
stringdb shinygo
written by feliyon86 • feliyon86
0 votes
1 reply
563 views
Output of heatmap2 tool on Galaxy
heatmap2
updated by GenoMax GenoMax • written by Stefano • Stefano
0 votes
3 replies
1.0K views
Download data from BV-BRC
bv-brc arm download bvbrc gene
updated by GenoMax GenoMax • written by rica01 • rica01
1 vote
3 replies
1.5K views
Splitting chromosomes into contigs within BAM and GTF files
samtools gtf chromosome annotation bam
updated by rfran010 • rfran010 • written by MAB • MAB
0 votes
3 replies
1.1K views
concoct in metawrap binning module - use all available threads instead of requested
binning concoct metawrap module
written by shevch2009 • shevch2009
0 votes
17 replies
2.7K views
Inverted TSS Enrichment Plot
atacseq deeptools
written by nmalexan • nmalexan
1 vote
1 reply
1.5K views
hg38 vs GRCh38 chr prefix
human genome reference
updated by GenoMax GenoMax • written by DBScan • DBScan
0 votes
4 replies
2.2K views
Problem using FastML for ancestral sequence reconstruction
fastml ancestral-sequence-reconstruction fastml.std
updated by christian.baumann • christian.baumann • written by CM • CM
0 votes
1 reply
762 views
Too many contigs in Spades output
spades assembly
updated by GenoMax GenoMax • written by waqaskhokhar999 waqaskhokhar999
0 votes
3 replies
928 views
How to handle contamination in 16s amplicon data
16s amplicon
updated by GenoMax GenoMax • written by 1769mkc 1769mkc
0 votes
12 replies
2.5K views
Strandedness issues in STAR quantification
star stranded
updated by GenoMax GenoMax • written by marek.gierlinski • marek.gierlinski
2 votes
8 replies
2.2K views
RNA-seq low quality sample in downstream analysis
mitochondrial genes rna-seq deseq2
updated by Aleksandra • Aleksandra • written by Yingying • Yingying
0 votes
3 replies
3.9K views
Transcript length from ensembl database
rna-seq transcriptomics
updated by colindaven colindaven • written by Dominik • Dominik
0 votes
0 replies
521 views
Differential Abundance Analysis (for metagenomics)
metagenomics differential shotgun analysis
written by aerotolerant • aerotolerant
1 vote
1 reply
771 views
Blog: Rust in Bioinformatics monthly newsletter
newsletter rust
updated by cmdcolin cmdcolin • written by Andrew • Andrew
0 votes
2 replies
1.1K views
Discrepancy in gene expression between cellranger and velocyto pipeline
velocyto scvelo seurat scrna
written by sarang.chafle • sarang.chafle
0 votes
8 replies
1.8K views
How to solve this featureCounts problem ?
paired-end rna-seq bioinformatic quantification
updated by ATpoint ATpoint • written by AIMAR • AIMAR
0 votes
0 replies
525 views
Help us with our Uni assignment! - fill out a form
visualisation dashboard
written by Kshirin • Kshirin
0 votes
0 replies
622 views
dRep Output
metagenomics mags drep
written by pranjalarun10 • pranjalarun10
0 votes
0 replies
956 views
News: Course: Intro to Network Analysis, Sept, 2025.
python network analysis
written by soledad.esteban • soledad.esteban
0 votes
9 replies
2.2K views
Annotation comparison files on NCBI of gene assembly
annotation
updated by GenoMax GenoMax • written by zirui • zirui
0 votes
1 reply
1.8K views
Kraken2/bracken with 16S sequencing downstream analysis
microbiome qiime2 dada2 metagenomics kraken2
updated by andres.firrincieli andres.firrincieli • written by Isidro • Isidro
0 votes
0 replies
1.1K views
News: Online Course – LLM-based tools for R (28 & 31 October 2025)
llms ai r
written by Physalia-courses Physalia-courses
0 votes
1 reply
827 views
inferCNV on Visium 10X: lower residual expression in tumoral spots (heatmap interpretation)
infercnv cnv visium score
updated by GenoMax GenoMax • written by Gabriele • Gabriele
0 votes
2 replies
1.2K views
Two config files for one Snakemake file
config yaml snakemake
written by Xiaokang • Xiaokang
0 votes
4 replies
1.1K views
Exome data analysis computing resources requirement query
exome
updated by GenoMax GenoMax • written by 1769mkc 1769mkc
1 vote
5 replies
12K views
TCGA MSI status
tcga clinical msi
updated by GenoMax GenoMax • written by jan jan
0 votes
6 replies
1.2K views
Summing the counts of duplicated genes in RNA seq data?
genes duplicated
written by toobavaraste • toobavaraste
2 votes
0 replies
595 views
Assembling a derivative chromosome from ONT WGS data
ont assembly whole-genome
written by Noah • Noah
0 votes
5 replies
1.3K views
[VG sim, surject, giraffe] How to remove a sample from GFA/GBZ graph
vg
written by saruman • saruman
0 votes
1 reply
607 views
naccess installation error
naccess
updated by GenoMax GenoMax • written by Angelo • Angelo
1 vote
3 replies
1.8K views
Download Isoform expression data from tcga
cancer transcript gene isoform
updated by t.fosk • t.fosk • written by nourmahfel • nourmahfel
0 votes
11 replies
5.4K views
Visualization of RNA-seq gene expression only one gene of interest between 2 conditions
rna-seq
updated by rajdeepboral00 • rajdeepboral00 • written by Chris • Chris
0 votes
1 reply
592 views
feature_ref files in upstream analyses related to Perturb-seq
perturb-seq
updated by GenoMax GenoMax • written by 2443422660 • 2443422660
0 votes
7 replies
2.1K views
Forum: Theoretical Question: Is Sub-Angstrom Geometric Identity (RMSD < 0.1 Å) in Convergent Evolution Possible?
kinesin biophysics biology molecular myosin
updated by GenoMax GenoMax • written by Alberto • Alberto
0 votes
0 replies
1.0K views
News: online course: An Introduction to Nanopore Direct RNA Sequencing (RNA004) - 27–30 October
directrnaseq nanopore rna004 rnamodifications
written by Physalia-courses Physalia-courses
0 votes
2 replies
995 views
Refflat file for Rattus norvegicus
refflat rattus-norvegicus rna-seq
updated by Ram Ram • written by AIMAR • AIMAR
0 votes
6 replies
2.2K views
Forum: LogFC on geometric means vs on arithmetic means. Presto vs Seurat
presto seurat logfc general questions
updated by ATpoint ATpoint • written by e.r.zakiev • e.r.zakiev
0 votes
1 reply
957 views
Question about anova-like test using Limma
makecontrasts limma
updated by Gordon Smyth Gordon Smyth • written by Daniel • Daniel
1 vote
3 replies
1.1K views
asking for optimized bash scripting
analysis
updated by Joe Joe • written by QX • QX
0 votes
5 replies
1.2K views
Differential expression genes
seq dge rna
updated by GenoMax GenoMax • written by m90 • m90
1 vote
3 replies
1.3K views
Discrepancy Between Fragment Size Distribution and MACS3-Predicted Fragment Length in ChIP-seq Dataset
macs3
written by christoph.neu • christoph.neu
0 votes
4 replies
1.5K views
Plotting of genes using tpm matrix
normalization tpm boxplot
updated by i.sudbery i.sudbery • written by rajdeepboral00 • rajdeepboral00
1 vote
2 replies
866 views
A question about model matrix and contrast
makecontrasts limma
written by jkim • jkim
0 votes
1 reply
1.4K views
Understanding MAG completeness and contig composition in metagenomic bins
data shotgun
updated by andres.firrincieli andres.firrincieli • written by shevch2009 • shevch2009
0 votes
4 replies
1.2K views
Understanding NCBI vs ENA data
ena ncbi sra
updated by GenoMax GenoMax • written by wes • wes
0 votes
2 replies
1.4K views
Job: Assistance running population specific hapibd
ancestry haplotype ibd
updated by cmdcolin cmdcolin • written by CJ169 • CJ169
0 votes
1 reply
765 views
Empty result using enrichGO
clusterprofiler
updated by GenoMax GenoMax • written by Chris • Chris
1 vote
1 reply
6.6K views
Convert ct file to dot bracket format
rna structure
updated by zahraniasari.2023 • zahraniasari.2023 • written by abdullahrenk • abdullahrenk
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