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1 vote
4 replies
4.2K views
genefu for PAM50 prediction
rna-seq breast cancer subtyping
updated by hamarillo 8 • | written by silviajserrano 5
0 votes
10 replies
2.2K views
Piping samtools to R
r ngs bash samtools
written by noodle 65
0 votes
2 replies
1.9K views
How to filter columns in a raw sparse matrix in R
matrix r
updated by bk11 312 • | written by bgbs 0
0 votes
7 replies
2.0K views
Integration of transcriptomics and proteomics: difficult matching names
rna-seq tmt nomenclature proteomics
written by ntsopoul 6
0 votes
2 replies
1.0K views
Input into WGCNA and Error on constructNetworks on RNA-Seq data - unique rownames
rownames rna-seq wgcna unique
updated by James 0 • | written by shasabhi1 0
0 votes
3 replies
1.4K views
trouble using sequenceTubeMap in chromium installed on WSL
vg
written by ayushm64 0
0 votes
0 replies
749 views
what exactly is a k-mer table (remora)?
remora basecall
written by anne 0
0 votes
6 replies
14K views
List of species in RepeatMasker Tool (species parameter)
repeatmasker masking
updated by Bioinfotec 2 • | written by nut_B 1
0 votes
6 replies
2.6K views
Rename multiple fastq.gz files
fastq next-gen
updated by shenwei356 870 • | written by Jérémie 0
0 votes
1 reply
714 views
Help/Direction Needed for Data Analysis of RNA
sequencing rna-seq dna-seq
updated by dsull 781 • | written by niruf 0
0 votes
0 replies
973 views
Job: Ensembl Outreach Project Leader
ebi embl genomics ensembl
written by Ben Moore 241
0 votes
3 replies
1.4K views
Bwa sampe - BGI
bwa-sampe bgi
updated by GenoMax 16K • | written by lorena9132 1
0 votes
0 replies
1.0K views
News: Final Call - Bioinformatics Pipeline Development with Nextflow (May 27-29, 2024)
workshop rna-seq nextflow dna-seq
updated by Ram 4.5K • | written by David Langenberger 1.1K
1 vote
3 replies
1.1K views
Forum: Bioinformatics: Where do I start
sequencing
updated by dromicslabs51 0 • | written by Adi 2
0 votes
2 replies
1.3K views
GSEA analysis in R
gsea r arabidopsis
written by Sudip 0
1 vote
2 replies
2.3K views
Visualization of PROKKA Annotation Result?
prokka annotation
updated by Joe 2.2K • | written by ferdinand 1
0 votes
2 replies
1.1K views
Which experiments generate Position Frequency Matrix?
position-frequency-matrix
written by Anisur Rahman 8
0 votes
2 replies
1.4K views
I am new to single cell analysis. Can RNA velocity (spliced/unspliced) be calculated solely from the raw file (count matrix) provided in the Supplementary files from GEO?
geo velocity count-matrix
updated by Ram 4.5K • | written by Spring 0
0 votes
0 replies
461 views
Add geno header to VariantAnnotation objects
nichenet scrna-seq
written by QX 9
0 votes
4 replies
2.0K views
I'm new to cell ranger. Can single cells prepared with a protocol other than the 10x genomics protocol not be processed with cell ranger?
cellranger scrna-seq 10x
written by Spring 0
0 votes
5 replies
2.0K views
Where to find the homopolymer regions bed file for Hg002 genome?
simple-repeats hg002 bed homopolymer-regions
written by Bikram Kumar 0
0 votes
1 reply
1.4K views
WGCNA network from Adjacency or TOM matrix
wgcna network
updated by andres.firrincieli 412 • | written by Milly 0
0 votes
1 reply
717 views
Error in edgeR/Deseq2 Analysis
r edger
updated by ATpoint 9.1K • | written by Ravita 0
0 votes
2 replies
1.9K views
Getting marker genes for cell types
clustering marker-genes umap
written by orzrzlyo 2
0 votes
1 reply
1.1K views
gene body coverage with RSeqQC
rna-seq qc
updated by BioinfGuru 214 • | written by wiscoyogi 4
0 votes
2 replies
939 views
Statistical Advice Needed for RNAseq Data Analysis
statistical-significance genomics rna-seq data-analysis
updated by Ram 4.5K • | written by David 0
0 votes
1 reply
2.2K views
Using adonis to include a random effect
mixed-model adonis
updated by LChart 518 • | written by leranwangcs 15
0 votes
3 replies
2.0K views
how to get the variance explained by the independent variable from multivariate distance matrix regression model with random effect?
multivariate-distance-matrix regression
updated by LChart 518 • | written by leranwangcs 15
0 votes
2 replies
1.2K views
Can I compare kallisto counts from samples with different amount of reads?
rna-seq kallisto
written by bioinfo 19
0 votes
1 reply
1.3K views
How to get the reference panel sites for TOPMed hg37 and 38
imputation
updated by bk11 312 • | written by sinhas 0
0 votes
5 replies
1.5K views
Best way to deal with overlapping read names in merged BAM files
picard markduplicates
written by shpak.max 8
0 votes
1 reply
865 views
merging Seurat objects after SCT
seurat sct
updated by Ram 4.5K • | written by michelle.swarovski 0
0 votes
1 reply
887 views
Two databases: Human Microbiome Project and MGnify
microbiome databases
updated by GenoMax 16K • | written by haiying.kong 36
0 votes
2 replies
1.0K views
RNAseq 1 control 2 different treatment
rna-seq
written by matteo.levorato 0
1 vote
0 replies
567 views
Seeking Advice on Gene Ontology Analysis for Bulk RNA-Seq Data Without Control Samples
gene-ontology rna-seq r
updated by Ram 4.5K • | written by Oscar 1
0 votes
2 replies
2.2K views
CombineGVCFs vs. MergeVcfs
combinegvcfs mergevcfs gatk wgs gvcf
updated by Jeremy Leipzig 2.3K • | written by Sd 0
0 votes
0 replies
548 views
News: Deadline Approaching: PETs for Public Health Challenge
privacy public-health-challenge
updated by Ram 4.5K • | written by polarise 38
0 votes
2 replies
1.3K views
Problem with Sniffles pipeline and SV calling help
sv sniffles structuralvariant
updated by GenoMax 16K • | written by njornet 2
6 votes
0 replies
1.0K views
Herald: The Biostar Herald for Monday, April 15, 2024
herald
written by Biostar 380
0 votes
1 reply
1.3K views
Trouble understanding seemingly contradicting results of GSE analysis (contradicting enriched GO terms with similar negative NES scores)
gsea pathways go-terms
updated by i.sudbery 2.3K • | written by Manko47 1
1 vote
6 replies
1.6K views
Odd results with BLAST remote
blast remote ncbi
updated by b.contreras.moreira 49 • | written by Begonia_pavonina 22
3 votes
9 replies
3.8K views
BRAKER3 genome annotation
annotation braker3 genome
updated by andorjkiss 6 • | written by manaswiniparija3 6
2 votes
0 replies
641 views
What are good Python models/packages to predict small molecula (SMILES) binding to proteins ?
smiles
written by Alexander 22
1 vote
6 replies
1.8K views
Do I need to go back and filter my long-reads?
alignment nanopore filtering qc ont
updated by GenoMax 16K • | written by eebloom 11
0 votes
0 replies
544 views
Automated internal stop codon checker
orf stopcodon internal virus
written by Balazs Horvath 1
0 votes
0 replies
583 views
Repeat expansion identification tools for long-read data
fragilex repeatexpansion long-read fmr1
written by adarsh 8
0 votes
4 replies
2.3K views
Which command ro run MAKER pipeline for gene annotation ?
run. command to makerpipeline.
updated by GenoMax 16K • | written by Sony Nguyen 2
0 votes
0 replies
718 views
FreeBayes detection capacity
reads freebayes long
written by quentinperriere 0
0 votes
2 replies
1.1K views
VCF annotation with gnomADv4 using R package
annotation gnomadv4 r vcf
written by DKA 4
0 votes
7 replies
4.9K views
Forum: Bioinformatician who was retaliated against after reporting discriminatory harassment - Please help me navigate getting out of the situation I'm in
career advice
updated by Dunois 301 • | written by AdviceSeeker 1
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