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0 votes
1 reply
553 views
News: AI in Drug Discovery - online, 12–15 October
machinelearning drugdiscovery deeplearning gnns ai
written by Physalia-courses 281
0 votes
1 reply
544 views
Proteomics normalization: equal protein loading but unequal cell counts in clinical samples
proteomics
updated by ATpoint 9.1K • | written by Kittinun 0
0 votes
8 replies
1.8K views
Querry Error - Can't connect to MySQL server on '127.0.0.1' (111)
annotation biomart error
updated by AFerr 0 • | written by Claire 0
0 votes
1 reply
646 views
Troubleshooting High cis/tran ratio in Hi-C
sequencing hi-c
updated by i.sudbery 2.3K • | written by HT 0
0 votes
0 replies
514 views
Tool: kegg-mcp-server-python: an open-source Python MCP server for querying KEGG from AI assistants
api mcp kegg ai python
updated by GenoMax 16K • | written by lucasservi 0
0 votes
9 replies
885 views
How to run Spades with debug option
debug assembly spades
updated by Michael Dondrup 5.6K • | written by marongiu.luigi 79
0 votes
0 replies
478 views
News: Online course - Spatial Omics in R/Bioconductor - 18–20 May.
spatialomics bioconductor r
written by Physalia-courses 281
0 votes
3 replies
2.6K views
Databases to check variant pathogenicity
wholeexomesequencing
updated by Agasthya 0 • | written by Fatemeh Nabizadeh 1
0 votes
0 replies
515 views
News: EMBO Practical Course | Causality in biomedicine: going beyond associations
bioinformatics training biomedicine
written by EMBL Events 2
0 votes
4 replies
841 views
How to set fq.gz as input for bbduk (BBmap)?
preprocessing bbmap sequencing trimming
updated by fernando 7 • | written by marongiu.luigi 79
1 vote
6 replies
1.4K views
Best practices for improving BRAKER annotation with long-read Iso-Seq and short-read RNA-seq transcriptome data
braker non-model genome-annotation iso-seq rna-seq
updated by fernando 7 • | written by Andrei Makhon 1
0 votes
1 reply
494 views
Best OrgDb for phytoplankton
bioconductor rvvgo orgdb
updated by fernando 7 • | written by Teleo 0
0 votes
8 replies
1.1K views
Non-specific annotations in KEGG, Pfam for plant denovo RNA seq data
plant novo rna seq de
updated by fernando 7 • | written by Hemangi 0
0 votes
7 replies
1.1K views
How to extract headers from protein fasta file for seqkit analysis?
signalp subsetting seqkit headers faa
updated by fernando 7 • | written by marongiu.luigi 79
1 vote
8 replies
1.1K views
DESeq2- comparing treatments in repeated experiment
batch-effect deseq2
updated by fernando 7 • | written by Jade 1
0 votes
12 replies
1.3K views
Poly-G and Missing data Novaseq X vs Novaseq 6000
poly-g gbs novaseqx missingdata
updated by GenoMax 16K • | written by Butterfly 0
0 votes
7 replies
719 views
Conflicting Genome Sizes from GenomeScope2.0 and Assembler
assembly genome genomescope2 abyss
written by saamhasan55 3
0 votes
0 replies
508 views
Tool: VarViz: A Free, Open-Source Web Application for Protein-Centric Missense Variant Visualization and Automated ACMG/AMP Classification
missense clinvar acmg variant_interpretation gnomad
written by Agasthya 0
1 vote
3 replies
250 views
How do you know if a sequencing dataset is safe to run before pipelines?
sequencing ngs quality-control fastq pipelines
updated by lieven.sterck 1.6K • | written by johndains 1
2 votes
0 replies
233 views
Job: Bioinformatics Postdoc -University of Louisville
bioinformatics multi-omics biology computational
written by uofbccbioinformatics 2
0 votes
3 replies
303 views
Unable to build vg from source: `fatal error: opening dependency file bdsg/obj/eades_algorithm.d: No such file or directory`
vg
updated by fernando 7 • | written by pmenzel+www.biostars.org 0
0 votes
8 replies
615 views
Best contrast strategy to identify condition-specific effects in limma
rna differential expression drugs limma
written by fnepo 4
0 votes
2 replies
272 views
How to retrieve RNA expression dataset of METABRIC - 144 adjacent normal samples ?
metabric
updated by fernando 7 • | written by pooja 0
2 votes
1 reply
141 views
When to use RSEM vs z-scores in cBioPortal mRNA data?
rna-seq cbioportal
updated by fernando 7 • | written by Kelly 2
2 votes
1 reply
116 views
Mitochondrial DNA analysis (illumina global array)
microarray heteroplasmy illumina mitochondria
updated by fernando 7 • | written by 112233 2
0 votes
2 replies
183 views
Questions about karyotyping and metaphase spread
chromosome karyotyping
updated by fernando 7 • | written by SF 0
0 votes
7 replies
644 views
Three possible copies of One Gene, which one is true?
gene copies
updated by fernando 7 • | written by Gabriel 0
0 votes
1 reply
70 views
“Handling diversity saturation in soil microbiome data: alternatives to standard alpha diversity indices?”
diversity-alpha-diversity-microbiome-ecology-phylogenetics-statistics-analysis
updated by fernando 7 • | written by gautamyam673 0
0 votes
2 replies
224 views
Downstream analysis for microarray data
microarray affymetrix limma
updated by fernando 7 • | written by Qistina 0
0 votes
3 replies
346 views
Continuous Cox survival analysis with TCGA gene expression data?
mrna tcga cox univariate survival
updated by fernando 7 • | written by maartje 0
0 votes
1 reply
101 views
WGCNA soft thresholding: R² plateau at power 2 but mean connectivity drops to near zero by power 3 . Unusual pattern?
wgcna
updated by fernando 7 • | written by Isadora 0
0 votes
2 replies
242 views
Per base sequence content of Metagenomic samples
metagenomics ngs fastqc
updated by fernando 7 • | written by Savindu 0
0 votes
7 replies
666 views
Doubt about single Cell Data integration
10x single cell harmonization integration
updated by ATpoint 9.1K • | written by ijarne 3
0 votes
1 reply
97 views
IntegrateData orig.ident = "SeuratObject"
integration seurat sctransform st
updated by fernando 7 • | written by mmorillo 0
0 votes
1 reply
161 views
Different QC strategies for ONT reads in read-based vs assembly-based metagenomics
metagenomics ont assembly nanopore
written by Luwell 0
0 votes
1 reply
121 views
SCEVAN analysis for the scRNA datasets
cnv integration scrna
updated by fernando 7 • | written by mrashad 9
0 votes
2 replies
339 views
Low overlap due to poor reverse read quality in 2×300 bp V3–V4 amplicon sequencing (DADA2)
metagenome dada2
updated by fernando 7 • | written by yesquokkan 1
0 votes
1 reply
567 views
When should I use JoinLayers() after merging multiple Seurat objects?
single cell seurat
updated by fernando 7 • | written by 城玮 0
0 votes
1 reply
156 views
Clustering of RNA-seq data
normalization rna-seq clustering
updated by fernando 7 • | written by Eduardo 0
0 votes
2 replies
106 views
Very less highly expressed genes in DGE analysis
dge analysis
updated by fernando 7 • | written by ziraa 0
0 votes
5 replies
563 views
External identity on Terra in Europe with NIH
terra dbgap gsutil
updated by fernando 7 • | written by Charlotte Stubbe 0
0 votes
4 replies
506 views
Large FASTQ file processing failure: MetaPhlAn 3.0.7 + HUMAnN on 16-core 64GB system
metagenomics biobakery metaphlan3.0.7 humann3
updated by fernando 7 • | written by chatterjeejayeeta100 0
1 vote
2 replies
263 views
Recommended bwa-mem2 implementation for Illumina short-read alignment?
ngs bwa-mem2 alignment illumina
updated by fernando 7 • | written by kalavattam 85
0 votes
1 reply
93 views
GenomicsDBImport completes successfully, but SelectVariants/GenotypeGVCFs hangs at “Starting traversal” when reading gendb:// workspace
gatk
updated by fernando 7 • | written by chiyong4783 0
0 votes
4 replies
327 views
Error while doing joint genotype calling using GATK
snps gatk gwas wgs
written by ngseq 0
0 votes
0 replies
67 views
News: Cancer Genomics workshop - online, 27–29 April
precisiononcology cancergenomics
written by Physalia-courses 281
0 votes
8 replies
811 views
Liftover failure with UCSC from hg38 to hg19
ucsc hg19 hg38 liftover
updated by Maximilian Haeussler 179 • | written by _quantum_girl_ 8
0 votes
0 replies
145 views
Job: Assistant, Associate, or Full Project Scientist in Molecular Biology
ucsd biology
written by UCSDBioSci 3
2 votes
0 replies
130 views
Tool: vcfkit — open-source Rust CLI for VCF normalize, liftover, and filter (4× faster than bcftools on filter)
rust vcf normalize filter liftover
written by Prasad 2
0 votes
4 replies
609 views
differential gene expression analysis (samples number)
expression differential analysis gene
updated by swbarnes2 1.5K • | written by Hossam 0
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