Limit : this week
all time today this week this month this year
98 results • Page 2 of 2
Sort: Votes
Rank Views Votes Replies
0
votes
1
reply
91
views
Error from Using FindVariableFeatures Function in Seurat Package
FindVariableFeatures Seurat
updated 4 hours ago by ★ 4.5k • written 17 hours ago by ▴ 20
0
votes
0
replies
30
views
Converting gaf files to sam/bam?
bam gaf sam
3 hours ago by guntul ▴ 40
0
votes
0
replies
33
views
How to interpret Phylonet MCMC_BiMarkers result file + Running time problem
phylonet
2 hours ago by ylkim9 • 0
0
votes
1
reply
55
views
ribosomeProfilingQC help
ribo-seq
updated 2 hours ago by ▴ 410 • written 9 hours ago by ▴ 40
0
votes
1
reply
62
views
Differentially expressed genes analysis using IPA?
Differential gene expression
updated 1 hour ago by 86k • written 12 hours ago by ▴ 20
0
votes
2
replies
60
views
Removing confounding batch effects
sva limma batch-effect
updated 1 hour ago by ▴ 70 • written 5 hours ago by • 0
0
votes
0
replies
11
views
capmq and verifybamid
bam capmq vcf verifyBAMID
30 minutes ago by Peter Chung ▴ 210
0
votes
0
replies
200
views
Sesame Data ExperimentHub and related issues
caching sesame methylation
updated 6 days ago by 148k • written 7 days ago by ▴ 10
0
votes
0
replies
1
view
chromatin loop annotation for hic
enhancer chromatin HI-C promoter
just now by J.F.Jiang ▴ 930
0
votes
0
replies
211
views
Forum: Variant calling (SNV/InDel): is only using properly paired reads recommended?
mapping variants
updated 6 days ago by 148k • written 7 days ago by 6.1k
0
votes
1
reply
228
views
Missing `pro_ref` Folder in PICRUSt2 Default Files
github PICRUSt2
updated 6 days ago by 44k • written 6 days ago by • 0
0
votes
0
replies
198
views
LDhat analysis pipeline
recombination LDhat
6 days ago by chaudharyc61 ▴ 100
0
votes
0
replies
197
views
How to determine which pangenome nodes correspond to hg38 coordinates?
pangenome reference-genome hg38 genomics
6 days ago by a5864557 • 0
0
votes
3
replies
320
views
Understanding how to deal with Brain snRNA-seq data
scanpy python single-cell anndata RNA
updated 6 days ago by ★ 4.5k • written 6 days ago by ▴ 170
0
votes
2
replies
347
views
contrast matrix design for a continuous variable at multiple groups
design contrast limma
6 days ago by dtzhu337 ▴ 10
0
votes
0
replies
210
views
Account for Clinical Variables in RNA-Seq Analysis
edgeR Batch effect
6 days ago by fabian ▴ 10
0
votes
0
replies
202
views
Repeat Modeler Database Generation
masker modeler genome fungus repeat
5 days ago by SomeOne ▴ 160
0
votes
1
reply
244
views
Box plot of gene expression data
boxplot
updated 5 days ago by 86k • written 5 days ago by ▴ 10
0
votes
1
reply
249
views
Use Hi-C Sequence Data of close relative for scaffolding of genome.
assembly genoem fungus HiC sequencing
updated 5 days ago by 148k • written 5 days ago by ▴ 160
0
votes
3
replies
308
views
Merging gvcf files between Dragen and other calling tools
gvcf merge bcftools
updated 5 days ago by 165k • written 5 days ago by ▴ 140
0
votes
0
replies
208
views
gcpp ERROR: [pbbam] read group ERROR: basecaller version is too short:
header pacbio bam basecaller gcpp
5 days ago by therosng • 0
0
votes
1
reply
259
views
circos ignoring the ticks and plots
diagram circos
updated 5 days ago by 148k • written 5 days ago by • 0
0
votes
0
replies
203
views
Plugging output files from phyluce phasing workflow into Structure
phyluce uce bam phasing structure
5 days ago by gabe.somarriba • 0
0
votes
7
replies
413
views
Issue with CIBERSORTx Error 139
CIBERSORTX docker error193
updated 5 days ago by ★ 18k • written 5 days ago by • 0
0
votes
0
replies
215
views
Genetic Trio Phasing with EAGLE2 using hg38
trios haplotype phasing genetics
5 days ago by heskett ▴ 110
0
votes
0
replies
219
views
Analysis and Verification of Mathematical Equations in the Theory of Consciousness
Consciousness brian Neuron neurobiology
updated 4 days ago by 148k • written 4 days ago by • 0
0
votes
0
replies
205
views
Clumping- cannot mtfrm
clumping MR
updated 4 days ago by 148k • written 4 days ago by • 0
0
votes
0
replies
164
views
WGCNA sample-data preprocessing order
gene-expression wcgna microarray network data-preprocessing
3 days ago by Reuben • 0
0
votes
1
reply
229
views
Annotate GWAS result gene function from GFF file
gwas gff gff3 annotation
updated 3 days ago by 15k • written 4 days ago by • 0
0
votes
1
reply
674
views
Nothing happens when running GATK VCF Validate Variants. Output warning: processed 0 (zero) total variants
GATK VCF snp ValidateVariants
updated 3 days ago by 165k • written 3 days ago by • 0
0
votes
0
replies
144
views
Comparison of different gene catalog abundance
assembly catalog metagenome illumina gene
3 days ago by young_bioinformatician ▴ 240
0
votes
0
replies
148
views
Heritability
greml heritability
2 days ago by am29 ▴ 50
0
votes
0
replies
140
views
ArchR extending gene activity till nearest promoter
ArchR addGeneScoreMat
2 days ago by Bastien Hervé 6.1k
0
votes
0
replies
129
views
Interpretaion of tensorQTL output for ieQTL analysis
TensorQTL IeQTL Beta-Values
updated 2 days ago by 44k • written 2 days ago by • 0
0
votes
2
replies
213
views
RSEM and STAR
STAR RNASeq RSEM
2 days ago by rajdeepboral00 ▴ 20
0
votes
1
reply
148
views
SRA fastq modify by 10x valid fastq
fastq
updated 2 days ago by 148k • written 2 days ago by • 0
0
votes
0
replies
109
views
eQTL Analysis for Structural Variants (SV) – Seeking Relevant Software
eQTL SV
2 days ago by chiyong4783 • 0
0
votes
1
reply
144
views
Building pangenome graphs in minigraph-cactus using vcf?
pangenome vcf cactus
updated 2 days ago by ★ 1.6k • written 2 days ago by ▴ 60
0
votes
8
replies
840
views
How to get Normal Samples from TCGA?
Normal TCGA
updated 2 days ago by ★ 1.2k • written 4 weeks ago by ▴ 30
0
votes
5
replies
425
views
Which data to choose for correlation examination
correlation WGCNA TPM batch spearman
updated 2 days ago by ★ 1.2k • written 6 weeks ago by ▴ 10
0
votes
1
reply
185
views
Transcriptome Reconstruction for Transcript Discovery
taco stringtie
updated 2 days ago by ★ 3.9k • written 2 days ago by • 0
0
votes
0
replies
126
views
News: Computational Pangenomics course
Pangenomics Pangenome-Graphs
2 days ago by Physalia-courses ★ 2.6k
0
votes
0
replies
93
views
News: Course live online Intro Bayesian Analysis, February 17th-21st, 2025
python bayesian rproject statistics
1 day ago by Sole • 0
0
votes
1
reply
122
views
How to download metadata for the Broad Firehose RNA-seq data?
metadata tcga rnaseq
updated 1 day ago by 148k • written 1 day ago by • 0
0
votes
0
replies
97
views
Job: Postdoctoral Fellow (Quantitative Modeling Group)
Bioengineering Computational-Biology
updated 1 day ago by 44k • written 1 day ago by ▴ 70
0
votes
1
reply
483
views
perseus software (version 1.5.5)
mass spectrometry preseus data
1 day ago by Bioinformatics_16 ▴ 10
0
votes
0
replies
77
views
WGCNA: Can we use high power for signed network?
Powerselection RNA-seqdata WGCNA Networkanalysis
1 day ago by Vinesh ▴ 10
0
votes
0
replies
64
views
News: Online Course: Spatial Omics in R/Bioconductor | 19-21 May 2025
Spatial-Omics Bioconductor Tidyverse Omics
1 day ago by Physalia-courses ★ 2.6k
98 results • Page 2 of 2
Recent Votes
A: How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental
A: How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental
Answer: ChromHMM - annotation of chromatin states
A: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 201
Answer: File size increase after host read removal?
Answer: File size increase after host read removal?
Comment: File size increase after host read removal?
Recent Locations • All
Pakistan, just now
London, 1 minute ago
Japan, 2 minutes ago
Austria, 2 minutes ago
Russia, 3 minutes ago
Italy, 3 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087, 13 minutes ago
Recent Awards • All
Popular Question to graeme.thorn ▴ 110
Popular Question to Kai_Qi ▴ 130
Popular Question to singhankit973 • 0
Popular Question to noodle ▴ 610
Popular Question to tommy ▴ 40
Popular Question to Charles Yin ▴ 180
Popular Question to goyal.shiwali ▴ 20
Recent Replies
Comment: Removing confounding batch effects by SamGG ▴ 70
Hi. Show clearly your design.
Comment: Differentially expressed genes analysis using IPA? by ATpoint 86k
> healthy cells with no siRNA in my experiment But same treatment with empty vector, no? If not then you will mainly see the transfection …
Comment: Removing confounding batch effects by ATpoint 86k
> when they are confounded with the condition effect It's not. DESeq2 and limma all follow the same underlying principles. There is no mag…
Answer: ribosomeProfilingQC help by Jack Tierney ▴ 410
I apologise that this is so long. ### TLDR: - If you used sensible alignment parameters you would not need to realign but I suspect y…
Answer: Error from Using FindVariableFeatures Function in Seurat Package by Ming Tommy Tang ★ 4.5k
can you try FindVariableFeatures(Seurat_object, selection.method = "vst", nfeatures = 2000, loess.span = 0.5) increase the loess.span
Comment: Adding p value above plot by DareDevil ★ 4.3k
[Follow this][1] [1]: https://www.biostars.org/p/357878/
Comment: ChromHMM - annotation of chromatin states by Bioinformatics_16 ▴ 10
In the paper titled 'H4K16ac activates the transcription of transposable elements and contributes to their cis-regulatory function,' the au…
Comment: Best genome assembly tool? by GenoMax 148k
> I am really having trouble with Unicycler and SPAdes In what way? What kind of data are you working with?
Comment: How to do allele specific expression analysis (ASE) by GenoMax 148k
> how can I obtain the VCF files containing the SNPs that distinguish two species? Based on the original question you are not working wi…
Comment: How to do allele specific expression analysis (ASE) by dsull ★ 7.2k
You usually download it somewhere. I don’t know what species you are working with, so search around.
Comment: How to do allele specific expression analysis (ASE) by chentongouc • 0
Hello, I have other question, how can I obtain the VCF files containing the SNPs that distinguish two species? Thank you !
Comment: How to do allele specific expression analysis (ASE) by chentongouc • 0
Thank you ! I will try it!
Comment: FilterMutectCalls producing empty vcf file by ChumBucket2024 • 0
Nevermind, sorry. I figured out the issue. It was that I had moved the .stats file to another directory.
Answer: How to do allele specific expression analysis (ASE) by dsull ★ 7.2k
Obtain the VCF files containing the SNPs that distinguish your species from the reference genome, then run STAR with the WASP workflow (see…
Comment: FilterMutectCalls producing empty vcf file by Pierre Lindenbaum 165k
> but this gave me an empty file do you mean there was no variant or the file was just empty ? Show us the command line as well as the wa…
Traffic: 3941 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6