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0 votes
2 replies
963 views
Cell communacations analysis. I only have the proteome of one type of cell
how to
updated by QX • QX • written by David Arturo • David Arturo
0 votes
0 replies
559 views
bulk RNA-seq: how to remove batch effect between multiple batches and labels?
combat batch
written by kiraqueen • kiraqueen
1 vote
2 replies
899 views
A pipeline for prediction and annotation of obelisks
rna-seq
updated by Pierre Lindenbaum Pierre Lindenbaum • written by fred.s.kremer fred.s.kremer
0 votes
0 replies
515 views
Convert VCF file and add covariate information
vcf ped plink
written by asmariyaz23 • asmariyaz23
0 votes
0 replies
505 views
Merging Hi-C datasets originating from experiments using different enzymes
enzymes hi-c
updated by Ram Ram • written by hamarillo • hamarillo
0 votes
2 replies
2.4K views
Using the Ontology Lookup Service (OLS) API
api ols
written by longoka • longoka
2 votes
2 replies
1.0K views
Create a new reference genome with denovo assembly and standard reference with long read data?
pacbio
updated by gconcepcion gconcepcion • written by eorr • eorr
0 votes
3 replies
934 views
Extracting information from my VCF file
vcf
updated by bioruffo • bioruffo • written by realtreeecat • realtreeecat
0 votes
4 replies
1.4K views
Coverage observed in introns in the Knockdown genes but not in knockout genes
rna-seq star igv
written by rohitsatyam102 rohitsatyam102
0 votes
3 replies
3.1K views
Should I use Dfam or a custom repetitve elements library (from PlantRep) as a repeat database; using RepeatMasker in a Linux machine?
genome sequence repeatmasker blast
updated by b.contreras.moreira • b.contreras.moreira • written by Vijith • Vijith
0 votes
0 replies
609 views
How to access an image (slice) of interest in spatial analysis
spatial-transcriptomics seurat visium
updated by Ram Ram • written by piotto • piotto
0 votes
2 replies
1.0K views
Fpkm and log2fold change and pcr validation
fpkm
written by mounavisirekolam • mounavisirekolam
0 votes
2 replies
1.3K views
Location of NCBI ftp site changed?
ftp ncbi
written by sampsa.hyvamaki • sampsa.hyvamaki
0 votes
1 reply
1.0K views
MACS3 or SEACR
macs3 seacr
updated by jared.andrews07 jared.andrews07 • written by daffodil • daffodil
0 votes
0 replies
493 views
Visium dataset distance between spots calculations
spatialseq visium
updated by GenoMax GenoMax • written by houssi301 • houssi301
0 votes
0 replies
555 views
Best codeml model for estimating omega, M0 ?
codeml ete3 evol
written by Adrian Pelin Adrian Pelin
0 votes
1 reply
756 views
Pool-Seq same as normal variant calling?
pool-seq variant-calling
updated by dthorbur dthorbur • written by andrebolerbarros • andrebolerbarros
0 votes
1 reply
742 views
Karytotype color annotations
karyotype annotations chromosome color
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Mary • Mary
0 votes
1 reply
1.2K views
What alternative method would recommend for conducting gene ontology analysis?
wego gene-ontology
updated by dthorbur dthorbur • written by mathavanbioinfo mathavanbioinfo
0 votes
12 replies
3.6K views
Nanopore data filtering using fastp
fastp nanopore
written by emilydolivo97 • emilydolivo97
0 votes
2 replies
904 views
Is it possible to see so little adipocyte in white adipose tissue?
scrna-seq
written by kayah • kayah
0 votes
2 replies
904 views
singlecell annotation
scrna-seq annotation
written by kayah • kayah
0 votes
12 replies
3.2K views
Facing problem with extracting phenotypic data from GEO
wgcna geo
written by bioinfo_enthusiast • bioinfo_enthusiast
0 votes
1 reply
1.9K views
Autodock tools error - The requested operation requires lifting
autodock mgltools
updated by zx8754 zx8754 • written by DOMENICA ALEXANDRA • DOMENICA ALEXANDRA
0 votes
0 replies
456 views
t2t Reference gtf file
t2t
written by Emre • Emre
0 votes
2 replies
1.0K views
BWA MEM Alignment mapped small part of the reads!!
bwa mem
updated by bioruffo • bioruffo • written by Bunit • Bunit
1 vote
0 replies
667 views
Job: Job Opening - Fred Hutch - Director of Training & Community
fred-hutchinson
updated by Ram Ram • written by Fred Hutch (Recruiting) Fred Hutch (Recruiting)
1 vote
0 replies
754 views
Correlation analysis in single-cell sequencing data
scrna-seq correlation scatac-seq
written by Yingying • Yingying
0 votes
0 replies
649 views
MIENTURNET - miRNA enrichment analysis
mirna-enrichment mrna rna
updated by Ram Ram • written by PBC • PBC
0 votes
5 replies
1.8K views
Parsing fasta file by coordinates
linux fasta
updated by GenoMax GenoMax • written by sorrymouse sorrymouse
0 votes
2 replies
1.6K views
comparing VCF files
long-reads vcf variants ont nanopore
written by eebloom • eebloom
0 votes
2 replies
1.2K views
Using velocyto on 3'UTR 10x single-cell RNA-Seq data
single-cell single-end 10x velocyto
written by Sergio • Sergio
0 votes
0 replies
782 views
Job: Post-doctoral positions in computational biomedicine
data-science biomedicine machine-learning
updated by Ram Ram • written by pandey.gaurav pandey.gaurav
0 votes
13 replies
3.8K views
Allocating right resources to HPC using LSF scheduler
bwa gatk hpc lsf bsub
written by Maverick • Maverick
8 votes
6 replies
7.2K views
Tutorial: CorLevelPlot - Visualise correlation results, e.g., clinical parameter correlations
correlation corlevelplot
updated by Ram Ram • written by Kevin Blighe Kevin Blighe
0 votes
5 replies
1.7K views
How to download RNAseq data of only male KIRC patients?
tcgabiolinks
written by bioinfo_enthusiast • bioinfo_enthusiast
0 votes
0 replies
638 views
Multifactor Analysis in DiffBind
diffbind chipseq chip-seq
written by erbrocato • erbrocato
0 votes
0 replies
568 views
How to calculate weighted transcript length for each gene?
salmon tximport rna-seq
updated by Ram Ram • written by PK • PK
0 votes
2 replies
1.0K views
Deseq generating warning "the model matrix is not full rank"
deseq
updated by bioruffo • bioruffo • written by MAPK2 • MAPK2
1 vote
2 replies
11K views
Genome annotation: convert gtf to gff3 file
gff3 gtf
updated by vague-barracuda-4686 • vague-barracuda-4686 • written by shinyjj • shinyjj
0 votes
3 replies
1.3K views
What tools to assess coverage, completeness and contamination?
completeness contamination covarage
updated by Mensur Dlakic Mensur Dlakic • written by Kárita • Kárita
0 votes
0 replies
398 views
Metacoder plot_cladogram long calculation times
metacoder
updated by Ram Ram • written by La52dA97b6 • La52dA97b6
3 votes
9 replies
7.0K views
Snakemake >= version 8 cluster configuration and SLURM job submission
parallelization slurm snakemake cluster
updated by Simon • Simon • written by Maxwell • Maxwell
0 votes
1 reply
923 views
RNA-seq with normalized cpm count
rna-seq deseq2 edger
updated by Ram Ram • written by GiV17 • GiV17
0 votes
4 replies
1.2K views
Confirm if a genome position falls into a coding exon
exon ucsc coding
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Lila M Lila M
1 vote
0 replies
481 views
Downloading immne signature and pathway signature genes form publication and KEGG
genes transcriptome_signature
written by mrazib0210 • mrazib0210
0 votes
1 reply
899 views
How to perform GO enrichment analysis for assembled sequence ?
go-enrichment gene-ontology
updated by Ram Ram • written by Sony Nguyen • Sony Nguyen
3 votes
0 replies
1.0K views
Herald: The Biostar Herald for Monday, March 25, 2024
herald
written by Biostar Biostar
0 votes
4 replies
2.8K views
bowtie2 maximum value of MAPQ
bowtie2 bowtie
updated by axol0tl • axol0tl • written by sami • sami
0 votes
8 replies
2.0K views
0-based coordinates from samtools depth
samtools coverage depth
updated by Pierre Lindenbaum Pierre Lindenbaum • written by marco.barr • marco.barr
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