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0 votes
4 replies
2.6K views
Can a spiked-in negative control still be considered a true negative control in 16S sequencing?
sequencing
updated by Kevin Blighe 9.0K • | written by Vojtěch 0
0 votes
1 reply
937 views
useing lncHUB2 with R
genelist lnchub2 rprograming lncrnas
updated by Kevin Blighe 9.0K • | written by mastoreh 0
0 votes
1 reply
835 views
interpretation of the results obtained with digital PCR
dpcr
updated by Kevin Blighe 9.0K • | written by Lorenzo 0
0 votes
17 replies
4.5K views
A question of NGS requirement
storage rnaseq
written by zizigolu 438
0 votes
2 replies
915 views
Forum: How can I start learning bioinformatics? Any recommended beginner-friendly resources?
learning-resources beginners bioinformatics
written by dheeraj 0
0 votes
1 reply
964 views
R code for getting TFs from ChEA2024 by gene list
tf chea2024 rprograming genelist
updated by Kevin Blighe 9.0K • | written by mastoreh 0
2 votes
3 replies
1.9K views
install SCP problem
scp
updated by Kevin Blighe 9.0K • | written by Andy 14
0 votes
2 replies
1.3K views
exploring scRNA with only one sample per condition
scrnaseq exploring
updated by Kevin Blighe 9.0K • | written by Mery 0
0 votes
3 replies
1.8K views
Doubt on protein preparation before Vina
protein docking vina doubt
updated by Kevin Blighe 9.0K • | written by Ria 0
0 votes
7 replies
1.9K views
Upstream (5′) Coverage Depletion Observed in IGV
igv ont
updated by Kevin Blighe 9.0K • | written by safeassli 1
1 vote
5 replies
2.5K views
Weird edgeR normalization results for one tissue
edger normalization rnaseq
updated by Kevin Blighe 9.0K • | written by imetrev 1
0 votes
1 reply
1.2K views
Optimal way of running sysvi / scanvi
single-cell scanvi integration
updated by Kevin Blighe 9.0K • | written by LChart 518
0 votes
1 reply
1.5K views
Rescaling after relative abundance filtering of gut microbiome data
microbiome gut network
updated by Kevin Blighe 9.0K • | written by yesquokkan 1
0 votes
5 replies
1.5K views
lollipop plot showing DNA sequence
mutation plot lollipop
updated by Kevin Blighe 9.0K • | written by varga.luca 0
0 votes
6 replies
1.9K views
Obtaining DESeq2 LFC values for Loadings of Principal Components
rnaseq model deseq2 design pca
written by Nishant 0
0 votes
1 reply
640 views
Exploring cross-cancer similarity using SNP or variant data with deep learning
tcga deep-learning snp cancer
updated by Kevin Blighe 9.0K • | written by Pranava 3
0 votes
3 replies
1.3K views
Batch correction with ComBat for samples from multiple sampling sites
batch-correction combat
updated by Kevin Blighe 9.0K • | written by bobia9193 2
0 votes
2 replies
699 views
Autosome/ sex chromosome assembly error
genomics analysis sexchromosome tools
updated by Kevin Blighe 9.0K • | written by Megan 0
0 votes
1 reply
1.4K views
How should I interpret GSEA results for the C6: Oncogenic Signatures collection (e.g., MYC_UP.V1_DN)?
rna-seq oncogenic msigdb gsea pathways
updated by Kevin Blighe 9.0K • | written by Laura 0
0 votes
2 replies
684 views
Polyadenylation-PAS sites APAlyzer
r apalyzer
updated by Ram 4.5K • | written by aj123 14
0 votes
3 replies
1.6K views
Mixed marker expression in Xenium data
clustering xenium explorer
updated by Kevin Blighe 9.0K • | written by Song 1
0 votes
3 replies
1.0K views
Help interpreting antiSMASH BGCs for EPA (eicosapentaenoic acid) biosynthesis
biosynthetic_gene_cluster secondary_metabolism pks heterologous_expression
updated by Kevin Blighe 9.0K • | written by 城玮 0
0 votes
1 reply
698 views
reference genome into chromosomes but annotation only at scaffolds level
reference rnaseq genome scaffolds annotation
updated by Kevin Blighe 9.0K • | written by murheisa 0
0 votes
0 replies
525 views
News: Course: Multimodal AI for Systems Biology (Online, 2–6 March 2026)
genomics multimodalai multiomics
written by Physalia-courses 281
0 votes
4 replies
1.4K views
cufflinks- cuffquant issue
cufflinks
updated by colindaven 844 • | written by soyeon 0
0 votes
1 reply
519 views
Set parameters of fastsimcoal2.
fastsimcoal2
updated by GenoMax 16K • | written by haoma 0
0 votes
1 reply
587 views
Is it possible to reverse a VST transformation to obtain original counts?
bulkrnaseq vst-transformed_matrix
updated by ATpoint 9.1K • | written by arashsltni 0
0 votes
16 replies
7.0K views
Data retrieval from GEO
microarray geo
updated by Dimitris Grigoriadis 15 • | written by lessismore 144
11 votes
2 replies
24K views
Tutorial: How to download GEO data Quickly and easily
geo rna-seq r data-mining
updated by Dimitris Grigoriadis 15 • | written by Novogene 54
0 votes
2 replies
1.3K views
News: Only 8 places left - 1st Berlin Winter School in RNA-Seq Data Analysis (Dec 8-11, 2025)
transcriptomics rna-seq expression differential
written by ecSeq Bioinformatics 9
0 votes
0 replies
462 views
News: Workshop: Virtual Genome Annotation, November 18–20
genomeannotation workshop uconn
written by zsc25001 1
0 votes
5 replies
1.7K views
hisat2 error-Paired end reads not equal or lack of RAM/disk space?
end fastq paired
updated by ATpoint 9.1K • | written by aj123 14
7 votes
17 replies
19K views
Forum: Is Software Development a key part of Bioinformatics?
software-development
updated by Анна 0 • | written by xinuke 7
0 votes
2 replies
829 views
deep learning architectures
deep-learning
updated by Ram 4.5K • | written by Deepanshu 0
0 votes
1 reply
663 views
Creating a personalized genome assembly for read simulation from illumina WGS data
illumina consensus wgs phasing simulation
updated by colindaven 844 • | written by scsc185 8
0 votes
5 replies
1.4K views
Prokaryotic RNA-seq: how to handle ncRNAs in featureCounts and DE analysis?
ncrna lcrna trna tmrna
written by MaxMin 1
0 votes
1 reply
1.0K views
Unable to download bacterial protein sequences from NCBI using datasets CLI (DOMAIN is not a valid V2reportsRankType error)
prokaryotes datasets ncbi
updated by GenoMax 16K • | written by Rohan 4
0 votes
0 replies
454 views
News: Introduction to Nextflow online course
reproducibility nextflow training workflow-manager
written by Physalia-courses 281
2 votes
1 reply
720 views
Keep FastQC homopolymers or switch to fastp auto-detection?
adapter
updated by GenoMax 16K • | written by Abieskawa 2
0 votes
3 replies
908 views
Is there a term called 'pseudoenrichment' in Cut&Run analysis?
cutandrun chipseq
updated by LChart 518 • | written by sribas.chowdhury888 0
0 votes
2 replies
795 views
Include plasmid sequences in RNA-seq differential expression analysis for bacteria?
rna-seq rnaseq bacteria de plasmid
updated by GenoMax 16K • | written by MaxMin 1
0 votes
0 replies
662 views
Forum: For those with in autoimmune research, what are the biggest challenges seen in translating findings into real therapeutics?
drug-discovery autoimmune-disease immunology translational-research
written by greenandblackhack 0
0 votes
2 replies
1.7K views
Nextflow error: “Invalid method invocation call with arguments (java.util.ArrayList)” when connecting processes via joined channels
homer chipseq nextflow
updated by ATpoint 9.1K • | written by DdogBoss 7
0 votes
0 replies
526 views
Blog: Introduction
introduction
updated by Ram 4.5K • | written by Samuel 0
0 votes
2 replies
1.3K views
Assembling a chloroplast genome using only PacBio data (Illumina reads lost)
chloroplast genome-assembly
updated by shelkmike 201 • | written by Serena 0
0 votes
4 replies
1.7K views
replicate SyRi/plotsr output plot in R
r syri synteny
written by Matteo Ungaro 16
0 votes
5 replies
1.6K views
Forum: Idea: Cloud-based genome annotation & visualization tool — looking for feedback
genome-annotation software-development visualization
written by GeneScope 0
0 votes
4 replies
1.5K views
Access to bulk FAST5 datasets
ont sampling nanopore adaptive
written by matt_arnold_bio 0
0 votes
6 replies
1.7K views
SNP annotation tool options (alternatives to ANNOVAR)
annotation annovar
updated by Nicole 12 • | written by shpak.max 8
0 votes
3 replies
1.3K views
Differential gene expression analysis between species using methods involving read alignment to transcriptome
rna-seq kallisto tximp degs
written by arsala521 6
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