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0 votes
6 replies
10K views
Statistical test of difference between two conditions and account for the batch
significance-testing test seurat scrna-seq batch
updated by Kevin Blighe 9.0K • | written by npont 3
1 vote
2 replies
9.3K views
Shift in RNA 3' position, Term-Seq vs RNASeq
termseq rnaseq
updated by Kevin Blighe 9.0K • | written by npb27 2
0 votes
3 replies
11K views
Automatically annotating a feature using a genbank file
annotation genbank wgs
updated by Kevin Blighe 9.0K • | written by Mark 6
0 votes
1 reply
6.4K views
Finding RNA genes associated with X protein expression in CITE-seq Seurat object
seq cite single cell
updated by Kevin Blighe 9.0K • | written by Picasa 71
0 votes
4 replies
2.4K views
using packages with conda
snakemake conda scinkd
updated by Kevin Blighe 9.0K • | written by raquel 0
0 votes
2 replies
11K views
How to correctly report exon number for CRISPR-Cas9 knockout when genes have multiple isoforms?
numbering exon crispr-cas9
updated by Kevin Blighe 9.0K • | written by jakob.vanek 0
0 votes
2 replies
6.6K views
Ribosome profiling
riboseq
updated by Kevin Blighe 9.0K • | written by Min So 0
0 votes
4 replies
10K views
UMAP QC
scrnaseq spatial transcriptomics umap
updated by Kevin Blighe 9.0K • | written by R.L. 0
0 votes
2 replies
1.4K views
Minimap2 segfaults when mapping Nanopore reads to a very large reference database
nanopore minimap2 minimap ont alignment
written by firefox91 1
0 votes
11 replies
5.4K views
How to use NextFlow to compute identity score between bacterial genomes?
identity score genomes alignment nextflow
updated by Kevin Blighe 9.0K • | written by marongiu.luigi 79
0 votes
1 reply
6.8K views
Custom reference sequence length discrepancy with STAR/Salmon/gffread
refseq ensembl fasta star gtf
updated by Kevin Blighe 9.0K • | written by ki 0
0 votes
1 reply
4.4K views
Redox Ratio Analysis - RRApp for MatLab (V 1.3)
rra matlab ratiometric
updated by Kevin Blighe 9.0K • | written by bm.nina 1
0 votes
1 reply
5.4K views
Pfam IsoformSwitchAnalyzerR
isoforms pfam
updated by Ram 4.5K • | written by SpliceAndScript 0
0 votes
2 replies
6.8K views
Strange pattern in pct_counts_mt from bin2cell deconvolved VisiumHD data
spatial-transcriptomics bin2cell visiumhd
updated by Kevin Blighe 9.0K • | written by danielpintard 2
0 votes
1 reply
2.0K views
Covariate-adjusted SPIEC-EASI
microbiome network spieceasi
updated by Kevin Blighe 9.0K • | written by b 0
0 votes
4 replies
15K views
questioning about PCA graph in RNASeq analysis
bioinformatics-rnaseq
updated by Kevin Blighe 9.0K • | written by Alaa 0
0 votes
1 reply
5.3K views
BWA alt-aware pipeline troubleshooting
alt-aware bwa samtools
updated by Kevin Blighe 9.0K • | written by Duy 0
0 votes
3 replies
1.3K views
tximport error (medianLengthOverIsoform)
dtu rna-seq tximport
updated by Kevin Blighe 9.0K • | written by LGG 1
1 vote
2 replies
1.2K views
Best tool to qc gwas summary stats for a meta analysis
gwas
written by Rangarajan 2
0 votes
4 replies
1.3K views
vg giraffe successfully mapped?
vg
updated by colindaven 844 • | written by kingcohn 3
0 votes
23 replies
4.8K views
Batch Effect
batch effect
updated by Kevin Blighe 9.0K • | written by Umair 0
0 votes
0 replies
514 views
News: Manual Genome Curation using PretextView course
pretexview genomecuration genomeassembly hic
written by Physalia-courses 281
1 vote
2 replies
1.7K views
Merqury QV score evaluation for HiFi assemblies
inspecot hifi qv merqury genome
updated by samuel.a.odonnell 86 • | written by SomeOne 33
0 votes
4 replies
1.3K views
Can someone please help me understand why my fastq file looks like this?
fastq
updated by GenoMax 16K • | written by DNAngel 26
0 votes
4 replies
1.1K views
My ChIP-seq mapped reads are not evenly distributed in R1 and R2 fastq file
chip-seq
updated by Ian 614 • | written by Pallondyle 0
0 votes
1 reply
1.2K views
Error "no rows to aggregate" using makeFunctionalPrediction() Tax4fun2
r tax4fun2 prediction functional makefunctionalprediction
updated by Kevin Blighe 9.0K • | written by Marine 0
1 vote
2 replies
1.6K views
Slam-Seq Conversion Rate per Read
nf-core slam-seq slamdunk
updated by Kevin Blighe 9.0K • | written by Daniel 4
0 votes
10 replies
2.7K views
Errors with RSEM/bowtie2
rna-seq bowtie2 rsem trinity
updated by Kevin Blighe 9.0K • | written by Olivia 0
1 vote
1 reply
1.2K views
Is this an appropriate command for estimating contaminatin in a germline WGS sample using GATK?
gatk
updated by Kevin Blighe 9.0K • | written by curious 90
0 votes
3 replies
1.5K views
Fst and SNPs
fst r snps ddrad
updated by Kevin Blighe 9.0K • | written by md2022 0
1 vote
14 replies
9.7K views
miRNA low mapping ratings
mirna bowtie1 preprocessing counts aligment
updated by Kevin Blighe 9.0K • | written by Ant 5
0 votes
1 reply
6.4K views
metabolite identification related issue
metabolomics metaboanalyst
updated by Kevin Blighe 9.0K • | written by abhisekde038 0
0 votes
4 replies
3.3K views
DNA copy number blacklist for excluding common unreliable regions
blacklist copy number
updated by eebloom 11 • | written by yura.grabovska 94
0 votes
1 reply
688 views
Appropriate normalization of skewed data for "Translating multiomics single-cell data" with MOSCOT
normalization biostatistics scrna-seq anndata moscot
updated by Kevin Blighe 9.0K • | written by npont 3
0 votes
5 replies
1.7K views
Problems with PacBio's Improved Phased Assembler (IPA)
pacbio hifi assembly genome
updated by Kevin Blighe 9.0K • | written by Panos 191
0 votes
2 replies
771 views
Passing .bed files to nQuire create command
bed alignment nquire ploidy
written by akoontz11 0
2 votes
3 replies
1.3K views
Help me finding Resources for integrating clinical data with omics (survival, hazard, time-to-event analysis)
clinical transcriptomics proteomics bioconductor
updated by Kevin Blighe 9.0K • | written by WUSCHEL 94
0 votes
14 replies
3.5K views
Forum: How can a graduate student start offering bioinformatics pipeline development as freelance work for wet lab researchers?
snakemake career-advice nextflow
written by DdogBoss 7
0 votes
1 reply
910 views
Standard QC and EDA for Bulk RNA-seq
single-cell rna-seq python anndata bulk
updated by i.sudbery 2.3K • | written by AlexStar 22
0 votes
4 replies
1.2K views
RNASeq QC and STAR results confused
rna-seq star quality control
updated by lieven.sterck 1.6K • | written by shafi98 0
0 votes
3 replies
883 views
ChIP-Seq with one poor replicate, one good
chip-seq
updated by Ian 614 • | written by graeme.thorn 11
0 votes
0 replies
669 views
Job: Research Assitant (RA) position at University of Macau Faculty of Health Science
drug-discovery omics virtual-screening machine-learning artificial-intelligence
written by Nitin Narwade 168
0 votes
0 replies
708 views
Job: Postdoc Position at the Faculty of Health Science , University of Macau, Macau
drug-discovery omics virtual-screening machine-learning artificial-intelligence
written by Nitin Narwade 168
0 votes
0 replies
633 views
Job: Postdoc in Computational Biology for Ovarian Cancer Research
cancer ovarian biology ai computational
written by avinashd.sahu 0
1 vote
0 replies
676 views
News: RNA-seq Certification- Winter Registration Now Open
singlecell bulkrnaseq certification rnaseq
updated by GenoMax 16K • | written by Nicole 12
1 vote
2 replies
8.9K views
How to convert genetic coordinates to HGVS format?
next-gen snp hgvs
updated by Nina 3 • | written by lmelnik113 1
0 votes
4 replies
1.4K views
Checkm results differ from database info
checkm
updated by Kevin Blighe 9.0K • | written by alevbozan18 0
0 votes
3 replies
2.0K views
limmaFit error when comparing TCGA RNA-Seq data
r tcga limma
updated by Kevin Blighe 9.0K • | written by vernonlim98 0
0 votes
3 replies
2.3K views
installation of package ‘DESeq2’ had non-zero exit status
deseq2
updated by Kevin Blighe 9.0K • | written by Sarita 0
0 votes
2 replies
1.1K views
Need Help : JGI IMG Bulk Download
jgi
updated by Kevin Blighe 9.0K • | written by Ananaya 0
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