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16 votes
11 replies
53K views
When and why is bwa aln better then bwa mem?
aln comparison bwa mem
written by dariober dariober
1 vote
1 reply
778 views
How to deal polyploid and aneuploid sugarcane genome R570 for variant calling
aneuploid
updated by dthorbur dthorbur • written by Bushra Bibi Bushra Bibi
0 votes
2 replies
924 views
False positives annotation of Augustus?
augustus training
updated by lieven.sterck lieven.sterck • written by Joseph • Joseph
0 votes
2 replies
1.3K views
Mapping SNPs to genes
biomart snp ensembl r gene
written by Nigussie • Nigussie
0 votes
2 replies
841 views
Rockhopper Reference Genome Error
rockhopper
written by ATS • ATS
0 votes
0 replies
737 views
What can cause Faststructure to produce really high K clusters as optimal (e.g. 12 - 14)
snp vcf population
written by Drew • Drew
0 votes
7 replies
2.1K views
Trouble finding datasets
geo sra
updated by ehaag • ehaag • written by SHXVRR • SHXVRR
1 vote
2 replies
1.8K views
Imputation server failing to see samples in VCF files
imputation vcf
updated by Andresa Raquel Capodifoglio • Andresa Raquel Capodifoglio • written by Ben • Ben
0 votes
3 replies
1.2K views
Read Mapping of Reads to Reference Genome Shows Extreme Bias
mapping read bwa-mem coverage
updated by Michael Dondrup Michael Dondrup • written by Lawrence • Lawrence
0 votes
0 replies
773 views
News: Introduction to Python for Biologists (IPYB01)
python
updated by GenoMax GenoMax • written by oliverhooker oliverhooker
0 votes
0 replies
679 views
News: Machine Learning using Python (MLUP01)
python
updated by GenoMax GenoMax • written by oliverhooker oliverhooker
0 votes
2 replies
1.0K views
Interpreting a vcf file
variant vcf
updated by cmdcolin cmdcolin • written by ramiro.barrantes • ramiro.barrantes
3 votes
0 replies
26K views
Herald: The Biostar Herald for Tuesday, April 29, 2025
herald
written by Biostar Biostar
1 vote
2 replies
2.3K views
Best choices for DGE and pathway enrichment analysis in single cell data using pseudobulk?
deg gsea single-cell pseudobulk
written by txema.heredia • txema.heredia
0 votes
8 replies
4.0K views
Cluster annotation in single cell
single-cell
updated by Ethan • Ethan • written by synat.keam • synat.keam
1 vote
6 replies
8.9K views
Manual annotation of cell types in single cell RNA-seq
seurat single_cell annotation
updated by Ethan • Ethan • written by Gene_MMP8 Gene_MMP8
0 votes
7 replies
1.6K views
Clustal Omega stand alone versus website percent identity matrix
clustal msa identity percent
written by sorrymouse sorrymouse
0 votes
1 reply
870 views
PCA vs sparse PCA : differences in results
ml
updated by Ram Ram • written by Ariadna • Ariadna
0 votes
3 replies
1.5K views
Is this the correct DESeq2 design for model with interaction terms and batch effect and paired samples?
paired batch deseq2 interaction
updated by ATpoint ATpoint • written by marieke • marieke
0 votes
3 replies
2.9K views
Has the TRON Expression Atlas closed?
rna-seq cell-line
updated by Adam • Adam • written by fracarb8 fracarb8
0 votes
0 replies
629 views
News: online course: Machine Learning Methods for Longitudinal Data
r longitudinaldata epidemiology geneexpression forecasting
written by Physalia-courses Physalia-courses
0 votes
3 replies
1.1K views
deseq2 batch effect correction
r batch-effects deseq2
updated by rfran010 • rfran010 • written by Devbio • Devbio
0 votes
22 replies
3.7K views
How to generate identiy score between aligned sequences with Mauve?
identity score alignment mauve
updated by GenoMax GenoMax • written by marongiu.luigi marongiu.luigi
0 votes
3 replies
1.0K views
Error in deconvolution using CIBERSORTx
cibersortx deconvolution
updated by Aspire Aspire • written by yadavsoumya647 • yadavsoumya647
0 votes
0 replies
830 views
pLoF variants for gnomAD v.4
gnomad plof variants grch38
written by Damianos P. Melidis • Damianos P. Melidis
0 votes
2 replies
1.7K views
Genomic Data Portal (GDC) download a given a link file
gdc r tcga tcgabiolinks maftools
updated by Zhenyu Zhang Zhenyu Zhang • written by bioinformagician • bioinformagician
0 votes
1 reply
771 views
Finding matched RNA-seq and Ribo-seq datasets for Nicotiana benthamiana under the same condition
rna-seq ribo-seq translation-efficiency dataset-search nicotiana-benthamiana
updated by colindaven colindaven • written by Farshid • Farshid
0 votes
5 replies
1.5K views
Limma model gives weird results
model multivariate limma
written by leranwangcs • leranwangcs
0 votes
5 replies
1.9K views
How to download the entire C. elegans genome from WormBase into Excel with automated gene descriptions
gene wormbase celegans
written by bioinformatics_rk • bioinformatics_rk
0 votes
0 replies
1.4K views
Job: Postdoctoral Research Fellow, multi-omics, Univ of Nebraska Medical Center, Omaha, NE, USA
microbiome postdoc metagenome transcriptome metabolome
updated by GenoMax GenoMax • written by era • era
0 votes
0 replies
797 views
How to deal with the clusterProfiler analysis result?
clusterprofiler
updated by GenoMax GenoMax • written by Tundup • Tundup
0 votes
0 replies
871 views
News: Genome Bioinformatics Summer School: OMICSS-25
training bioinformatics school
written by Lilit • Lilit
0 votes
2 replies
1.2K views
Unable to find mitochondrial genes in latest rat genome(GRCr8)
seurat genome mitochondrialgenes ncbi singlecell
written by dxj294 • dxj294
1 vote
0 replies
876 views
Haplotype reference for ShapeIt (ShapeIt5)
phasing
written by evan.kransdorf • evan.kransdorf
0 votes
6 replies
1.7K views
Pre-Made STAR Index for mm10 Mouse Genome
star
updated by colindaven colindaven • written by littlebioinformatician • littlebioinformatician
0 votes
1 reply
769 views
The volcano plot shows data with an arm-shaped enrichment.
volcanoplot
updated by ATpoint ATpoint • written by lea.LD • lea.LD
0 votes
0 replies
623 views
Tool: GENetLib: A Python Library for Gene–environment Interaction Analysis via Deep Learning
gene-environment interaction analysis
written by Barry • Barry
2 votes
10 replies
2.7K views
STAR vs. Kallisto
star kallisto alignment rna-seq mapping
updated by dsull dsull • written by gogeni5529 • gogeni5529
0 votes
1 reply
670 views
News: Phylogenetic Comparative Methods in R (12–16 May, Online) - only 2 seats left
r phylogenetic-comparative-methods
written by Physalia-courses Physalia-courses
0 votes
1 reply
1.0K views
Biostar handbook
handbook biostar
updated by GenoMax GenoMax • written by himanshu0102 • himanshu0102
0 votes
2 replies
2.1K views
pangenome - Create a diagram venn
roary grep awk pangenome venn
updated by mplace • mplace • written by BATMAN • BATMAN
0 votes
4 replies
1.2K views
Addressing two nuisance factors in RNAseq
bulkrnaseq
updated by ATpoint ATpoint • written by jkim • jkim
1 vote
5 replies
2.0K views
DRAGEN FILTER
dragen variant-calling
updated by GenoMax GenoMax • written by theresia.celine • theresia.celine
0 votes
1 reply
1.1K views
Interpretation of the results: PCA
proteomics pca
written by Ariadna • Ariadna
0 votes
5 replies
1.6K views
How to check normal BAM_files before create a Panel Of Normals (PoN)
gatk variant_calling pon
written by AIMAR • AIMAR
0 votes
1 reply
967 views
how to handle infinite M-values in methylation array data
m-value methylation infinite array
updated by Basti • Basti • written by matt192 • matt192
0 votes
3 replies
2.4K views
Free and redistributable genomic data sets?
data software-development genomics
updated by Meeru • Meeru • written by woemler woemler
1 vote
6 replies
2.7K views
Rna-seq data
data rna-seq
updated by ehaag • ehaag • written by biology_inform • biology_inform
1 vote
3 replies
1.8K views
RNAseq example data
expression rna-seq data next-gen
updated by ehaag • ehaag • written by rakinitopo • rakinitopo
0 votes
1 reply
895 views
Transcript_id with "-0" after "flair collapse"
flair
updated by GenoMax GenoMax • written by anna_shin • anna_shin
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