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0 votes
2 replies
1.2K views
Should I not have any adapters after trimming?
rna-seq
updated by swbarnes2 1.5K • | written by bioinfo 19
0 votes
6 replies
2.0K views
Incorrect gene naming (SYMBOL)
gene-annotation
updated by Ram 4.5K • | written by Biomed-jeh 8
0 votes
1 reply
3.6K views
Problem after subset of single cell integrated dataset in seurat using sctransform
seurat integration scrnaseq sctransform subset
written by NGS_enthusiast 0
1 vote
6 replies
2.3K views
Why do people say it doesn't matter whether you run unassembled or assembled reads through Kraken?
assembly unassembled-reads kraken
written by trkfs 1
0 votes
5 replies
4.4K views
Best way to provide sequences to Local Colabfold to not overload their mmseq2 server
local colabfold
updated by dthorbur 350 • | written by myoui3122010 3
1 vote
9 replies
6.8K views
Preventing Conda/Mamba from accessing Anaconda repos when institution blocks them
conda mamba repos miniforge channels
updated by Jesse 94 • | written by kalavattam 85
1 vote
1 reply
1.0K views
GO Analysis Combine or Separate DEGs
clusterprofiler go
updated by mark.ziemann 199 • | written by Koki 1
1 vote
1 reply
1.1K views
scType on Xenium Spatial Transcriptomics
spatial xenium sctype
updated by geno89 2 • | written by Emma Jayne 1
0 votes
0 replies
745 views
How to extract the components of a cluster after pheatmap
heatmap export cluster
written by Luiza 0
0 votes
1 reply
2.3K views
Interpretation of MSMC2/PSMC/betaPSMC/ngsPSMC
demography psmc msmc
updated by csarabia 0 • | written by vap768 0
0 votes
3 replies
1.5K views
Metagenomic binnig step
binnig tools metagenomics
updated by Mensur Dlakic 3.0K • | written by m90 3
0 votes
1 reply
927 views
Tool to phase genotyped large SV from short-read data?
sv structural variant short-reads haplotype phasing
updated by Pierre Lindenbaum 17K • | written by afurches 0
0 votes
0 replies
536 views
Normalisation for sample splice junction profiles
splicing normalisation rnaseq
written by coolmattmonkey 3
0 votes
0 replies
593 views
Calculate base pair probability differences between Wild type and mutant sequences
probabilities rnaplfold rnafold basepair
written by RK 0
0 votes
1 reply
869 views
What is indicated by the red dotted lines in the `tiny_10x_pbmc.pdf` out put from `cellbender remove-background`
remove-background cellbender
updated by Bastien Hervé 680 • | written by joshua.theisen 3
0 votes
4 replies
1.6K views
Parameters for annotation with maker
maker masking plant annotation
written by san96 19
0 votes
3 replies
1.3K views
Extracting Sequences from a FASTA File Using Exon Coordinates from a GTF File
gtf fasta
updated by colindaven 844 • | written by Milica 2
0 votes
2 replies
852 views
Low Read Mapping for Differentially Expressed Genes in 3' RNA-seq Analysis
gene-expression single-end rna-seq
updated by Ram 4.5K • | written by Emy Alade 4
0 votes
3 replies
1.1K views
mapDamage error
mapdamage 1000genomes
written by anna.utili 0
0 votes
0 replies
735 views
News: Online Course: Flow Cytometry Data Analysis with R/Bioconductor (17–20 March 2025)
r bioconductor flow-cytometry cancer-genomics
written by Physalia-courses 281
0 votes
1 reply
1.6K views
Average length of mRNA on NCBI annotation seems too high
mrna
updated by lieven.sterck 1.6K • | written by yh1126 0
0 votes
0 replies
727 views
How to normalize qPCR results for covariates like cell type markers
normalization qpcr rna-seq
written by Sara 4
0 votes
4 replies
1.8K views
Proteomics Data Analysis
proteomics
updated by ATpoint 9.1K • | written by frarodmar17 4
0 votes
0 replies
587 views
Demultiplexing asymmetrically barcoded reads from multiplex amplicon nanopore sequencing
ont demultiplex
written by michael.flower.14 21
0 votes
8 replies
2.5K views
Regex in umi-tools doesn't identify pattern in non-beginning positions
whitelist umi-tools umi umi-tools umi-tools
updated by i.sudbery 2.3K • | written by kalaivani 1
0 votes
1 reply
996 views
GRCh38 reference paths in human pangenome
hprc grch38
updated by cmdcolin 448 • | written by Rugare 0
0 votes
1 reply
1.0K views
Annotate WGS VCF with Allele Frequencies
snpeff vcf wgs allele
updated by Pierre Lindenbaum 17K • | written by Gabriel 0
0 votes
4 replies
1.7K views
dentifying tumor vs normal cells in spatial transcriptomics
seurat xenium spatial-transcriptomics
written by geno89 2
2 votes
2 replies
1.8K views
Which zUMIs output to use for differential gene expression?
zumis rnaseq smartseq3 single-cell
updated by dsull 781 • | written by firestar 173
0 votes
1 reply
943 views
build a diploid reference using cactus-pangenome pipeline
cactus pangenome diploid graph vg
updated by Dunois 301 • | written by lucianocalderon 1
1 vote
0 replies
1.2K views
VEP doesn't count CADD
cadd vep annotation
written by balanannie 1
6 votes
9 replies
7.7K views
News: New in DiffBind: dba.plotProfile() - Peak profiles and profile heatmaps
diffbind chip-seq deeptools visualization atac-seq
updated by lijiangres 4 • | written by Rory Stark 218
0 votes
1 reply
942 views
Per tile sequence fails after trimming
fastqc wes sequencing
updated by GenoMax 16K • | written by ijarne 3
0 votes
0 replies
703 views
Pipelines/Tools for cleaning UK Biobank data?
ukbiobank rap
written by Christian 0
0 votes
0 replies
790 views
Key error when using prepDE.py
python prepde stringtie keyerror
updated by WouterDeCoster 4.8K • | written by mohamadelian1996 0
0 votes
2 replies
1.3K views
Scdblfinder issue
r scdblfinder
updated by Ram 4.5K • | written by rahma.khoualdia 0
0 votes
0 replies
779 views
Repeat Modeler Database Generation
repeat_modeler repeats fungi annotation genomes
written by SomeOne 33
0 votes
3 replies
1.1K views
Proteomics DEA
proteomics
updated by ATpoint 9.1K • | written by frarodmar17 4
0 votes
0 replies
692 views
Difficulty Finding LRR SD and BAF Drift in GenomeStudio 2.0
array lrr baf genomestudio snp
written by Josephine H. 0
0 votes
5 replies
3.8K views
ATAC-seq paired-end data peakcalling on MACS3 - BAMPE vs (BAM and shift with extsize)
macs3 bampe bam peakcalling atac-seq
updated by ATpoint 9.1K • | written by Manko47 1
0 votes
1 reply
680 views
LH Sequencing Machine?
fastq
updated by GenoMax 16K • | written by andrebolerbarros 0
2 votes
6 replies
1.7K views
High memory sorting of kmers - best way to use sort
uniq linux sort kmers
updated by Alex Reynolds 3.6K • | written by r.ackbersingh 3
0 votes
0 replies
659 views
News: Bayesian Data Analysis in R – Online Course (March 3-7)
r regressionmodeling statistics byesian
written by Physalia-courses 281
0 votes
0 replies
545 views
Age covariate in GWAS
gwas
written by aaaniich 0
1 vote
8 replies
2.4K views
How well was the rRNA depletion for RNA-Seq experiments
contamination star rrna bbduk ribodetector
updated by GenoMax 16K • | written by gogeni5529 9
0 votes
0 replies
735 views
News: Introduction to Machine Learning with R - online, March 3–7
r machine-learning omics genomics
updated by Ram 4.5K • | written by Physalia-courses 281
0 votes
0 replies
1.7K views
Job: 2025 Summer Internship Opportunity in Computational Biology
intern
written by Shicheng Guo 963
0 votes
5 replies
2.3K views
Tools for fasterq file?
trimming
updated by AB 39 • | written by shinyjj 7
0 votes
9 replies
2.9K views
How to convert fasterq File into fastq files ?
fastq fasterq
updated by AB 39 • | written by NikhilP 2
0 votes
5 replies
1.2K views
How to extract DEGs from GEO database
extract degs
written by harrydo1892 0
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