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0 votes
4 replies
1.3K views
gene expression design
r gene-expression rna-seq
written by bioinfo1994 • bioinfo1994
0 votes
4 replies
1.6K views
QC Analysis from Sanger sequencing
qc ab1 sanger
written by davidmaimoun • davidmaimoun
0 votes
1 reply
1.1K views
How to calculate the Genetic Distance (P-Distance) by using mtDNA pacBio data?
pacbio genetic-distance mtdna
written by hashim.rana11 • hashim.rana11
0 votes
3 replies
1.4K views
bash for merging bam files by samtools
samtools
updated by GenoMax GenoMax • written by QX • QX
0 votes
1 reply
1.1K views
Extremely high variance of coverage for metagenomic sample (variance-to-mean ratio ~2.5)
metabat metagenome coverage
written by k-tarasov • k-tarasov
0 votes
2 replies
3.9K views
blastn_vdb "- Error opening the following db(s): "
sra sra-toolkit blast blastn_vdb wgs
updated by cduvallet • cduvallet • written by musta1234 • musta1234
1 vote
0 replies
1.4K views
Tutorial: SingleCellExperiment object explained with a real-world example
bioconductor scrna-seq single-cell
updated by Ram Ram • written by Ming Tommy Tang Ming Tommy Tang
0 votes
2 replies
1.5K views
deeptools Compute reference-point and scale-regions
deeptools computematrix plotprofile
written by RD • RD
0 votes
3 replies
1.4K views
Clusters in Differential Gene Expression Data
gdc gene-expression seurat
updated by Zhenyu Zhang Zhenyu Zhang • written by Scofield • Scofield
0 votes
1 reply
797 views
Exon count and GC content
exon-count gc-content
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Varsha • Varsha
0 votes
4 replies
1.5K views
Making heatmaps of ATACseq annotation data in R?
atac-seq rstudio
updated by rfran010 • rfran010 • written by Ronin • Ronin
0 votes
2 replies
1.1K views
What does the name of a read mean? How to find its location in genome viewer?
ukb reads
updated by Pierre Lindenbaum Pierre Lindenbaum • written by sacryt • sacryt
0 votes
3 replies
1.5K views
Detecting a virus in RNA-Seq Data
fastq-screen rna-seq kraken2
updated by rfran010 • rfran010 • written by bioinfo1994 • bioinfo1994
0 votes
2 replies
1.0K views
finding housekeeping genes and small RNA sequences of Arabidopsis thaliana
housekeeping-genes rna
written by Bushra Bibi Bushra Bibi
0 votes
2 replies
1.2K views
getting RNA-seq raw counts from Kallisto
counts raw rna-seq kallisto
written by Meghan.T • Meghan.T
0 votes
1 reply
1.2K views
What database to use for GATK baseRecalibration when using the ensembl hg19 genome
ensembl gatk
updated by GenoMax GenoMax • written by ramiro.barrantes • ramiro.barrantes
0 votes
1 reply
1.0K views
Design model matrix with limma with cell different proportions estimates and batch effect
r limma deconvolution rna-seq
updated by Gordon Smyth Gordon Smyth • written by ij283 • ij283
0 votes
1 reply
773 views
Looking for a scientific source talking about the functionality of CONCOCT and MetaBAT
sources concoct assembly metabat
updated by Jess • Jess • written by marie.harmel • marie.harmel
0 votes
19 replies
3.6K views
Rstudio hangs on logisic regression using generalized estimating equations (geepack::geese())
geepack
written by jonas.andersson • jonas.andersson
0 votes
6 replies
2.5K views
Network analysis of TCGA and GTEx gene expression datasets
r gtex studio tcga
updated by marco.barr • marco.barr • written by Nusrat • Nusrat
0 votes
7 replies
1.9K views
fastq-dump not working in loop
fastq-dump
updated by Ram Ram • written by Bushra Bibi Bushra Bibi
0 votes
5 replies
1.8K views
assemble extracted kmers into longer contigs/sequences
assembly unique kmers
written by sapuizait • sapuizait
0 votes
4 replies
2.0K views
Error: Trimmomatic Command not found
ngs illumina quality-control trimmomatic
updated by Ram Ram • written by Tundup • Tundup
0 votes
2 replies
1.2K views
single nucleus RNA seq processing pipeline questions
demultiplexing snrnaseq
written by biotrekker • biotrekker
0 votes
0 replies
664 views
Add gene expression boxplot from plotCounts to each row of oncoprint via ComplexHeatmap
r complexheatmap oncoprint
updated by Ram Ram • written by bioinfo8 bioinfo8
0 votes
1 reply
786 views
Hybrid ScRNA Seq genome (transcriptome
scrna 10x cellranger
updated by dsull dsull • written by Kay • Kay
0 votes
1 reply
632 views
Fastqc: kmer-content failed
fastqc kmer
updated by Ram Ram • written by Joseph • Joseph
1 vote
5 replies
1.7K views
Home made clustering
r clustering
written by Bastien Hervé Bastien Hervé
1 vote
9 replies
4.1K views
How to solve Freebayes memory issue
ngs freebayes snp
written by anikcropscience • anikcropscience
0 votes
3 replies
1.9K views
chIP-seq vs ATACseq analysis
atacseq
written by QX • QX
0 votes
0 replies
788 views
How to calculate the P-distance in Heteroplasmy Analysis Using mtDNA PacBio Data: Tools and Procedures
pacbio heteroplasmy somatic-mutations mtdna
updated by Ram Ram • written by hashim.rana11 • hashim.rana11
0 votes
1 reply
926 views
Fastq files from control WGS X30 samples, Illumina Novaseq 6000
dna-seq wgs fastq
updated by Ram Ram • written by damian.loska • damian.loska
1 vote
2 replies
1.1K views
cancer type prediction based on RNASeq gene expression data?
cancer rna-seq
updated by Ram Ram • written by J.F.Jiang J.F.Jiang
0 votes
3 replies
1.0K views
Nextflow pipeline - GATK error
nextflow applybqsr gatk
updated by Pierre Lindenbaum Pierre Lindenbaum • written by eesha28112001 • eesha28112001
0 votes
1 reply
1.7K views
invalid class “Assay” object issue from Seurat
seurat
updated by bk11 • bk11 • written by QX • QX
1 vote
3 replies
1.9K views
conda-like env for R
r conda
updated by dthorbur dthorbur • written by QX • QX
2 votes
3 replies
1.4K views
r script for wgcna analysis
microarray wgcna
updated by andres.firrincieli andres.firrincieli • written by Ruchi • Ruchi
0 votes
3 replies
1.5K views
scRNA integration problem with cluster not being separated
seurat scrna
updated by QX • QX • written by mnx0723 • mnx0723
0 votes
0 replies
482 views
Conservation score calculation
conservation-score
written by Varsha • Varsha
1 vote
4 replies
1.6K views
Basic question about lncRNA identification
lncrna
written by ZZOYEA • ZZOYEA
0 votes
3 replies
1.3K views
Can I go from kallisto results to SEURAT directly
cell bustoolls kallisto single
updated by dsull dsull • written by biotrekker • biotrekker
0 votes
5 replies
1.6K views
How to know protomter position in the chromosome?
atac-seq
updated by rfran010 • rfran010 • written by sunyeping • sunyeping
1 vote
4 replies
2.6K views
Need to create a small artificial SRA file for unit testing
sequencing sequence
written by Sean McCorkle • Sean McCorkle
0 votes
4 replies
1.6K views
Normalization of samples with very different transcriptomic profiles
deseq2 normalization rna-seq edger dge
updated by ATpoint ATpoint • written by paulanavarrete116 • paulanavarrete116
0 votes
4 replies
1.6K views
Test custom signature using GSEA in scRNA-seq
scrna-seq seurat gsea
written by bio_info • bio_info
0 votes
2 replies
1.0K views
Question about protein-peptide docking
active-site docking
updated by Mensur Dlakic Mensur Dlakic • written by Acervo • Acervo
0 votes
6 replies
3.0K views
SortmeRNA command of the latest version does not work
metatranscriptomics sortmerna
updated by Ram Ram • written by eimanpharmacist • eimanpharmacist
0 votes
0 replies
688 views
Genome mapping mm39 via GTK (BaseRecalibration) - Where to get known sites of polymorphisms?
mm39
written by Rashid • Rashid
0 votes
0 replies
723 views
Value of short kmer lengths with 300PE sequencing
metagenomics sequencing spades microbiome
written by Bryan • Bryan
0 votes
0 replies
738 views
News: Online course: Reproducibility Data Analysis with R, from 28-31 October
r git quarto reproducibility docker
updated by Ram Ram • written by Physalia-courses Physalia-courses
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