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0 votes
1 reply
2.8K views
creating assay for seurat object
assay seurat
updated by CJP-OHRI • CJP-OHRI • written by Sky • Sky
4 votes
10 replies
12K views
Duplicates In The Context Of Deep Sequencing
sequencing duplicates
updated by zdzakula • zdzakula • written by KCC KCC
0 votes
4 replies
1.7K views
Getting a list of up- and downregulated genes using DESeq2
geneid deseq2
updated by Istvan Albert Istvan Albert • written by duplessisantzel • duplessisantzel
0 votes
1 reply
939 views
iqtree error
iqtree
updated by Ram Ram • written by chopinone • chopinone
0 votes
1 reply
951 views
News: ICOBLET 2024
conference
updated by GenoMax GenoMax • written by Amine • Amine
0 votes
3 replies
2.3K views
remove the letter a from a biplot in ggplot
legend biplot ggplot guides
updated by kalavattam • kalavattam • written by Assa Yeroslaviz Assa Yeroslaviz
0 votes
1 reply
990 views
How to extract reads by ID from Bracken (and not from Kraken2)
bracken extractreads
updated by GenoMax GenoMax • written by alenew.am • alenew.am
1 vote
0 replies
1.2K views
Job: Assistant Professor (tenure-track) and Professor (tenured) positions in Data Science
statistics faculty data-science
updated by Ram Ram • written by Institute of Science and Technology Austria (ISTA) • Institute of Science and Technology Austria (ISTA)
0 votes
0 replies
799 views
News: Join Our Online Course: Reproducibility Data Analysis with R (28-31 October 2024)
r git quarto reproducibility docker
written by Physalia-courses Physalia-courses
0 votes
2 replies
1.4K views
Find DE in single cell RNA sequencing
de deseq2 scrnaseq analysis
written by kayah • kayah
0 votes
3 replies
1.4K views
NA Values Appearing After Log Transformation of array Data
normalization
updated by Ming Tommy Tang Ming Tommy Tang • written by frankhailey645 • frankhailey645
0 votes
1 reply
992 views
Pathway analysis for mouse gene sets
mouse gage pathway-analysis gene-enrichment
updated by Ming Tommy Tang Ming Tommy Tang • written by iamsmor • iamsmor
0 votes
2 replies
1.3K views
How can I get the list of all human ensembl transcript ids?
ensembl
updated by Louisse_Ensembl • Louisse_Ensembl • written by ramiro.barrantes • ramiro.barrantes
0 votes
0 replies
522 views
Extracting Phylogenetic Outgroup Sequence from Reference Genome with BWA/SAMtools
alignment
written by dylanj.ohearn • dylanj.ohearn
2 votes
0 replies
530 views
Plotting effects in Dirichlet regression
r compositional-data dirichlet-regression
updated by Ram Ram • written by Juan • Juan
0 votes
5 replies
2.2K views
rRNA in gencode gtf file and rRNA rate in the RNA-seq dataset
rna-seq gencode rrna
updated by Ram Ram • written by ATRX ATRX
0 votes
0 replies
1.2K views
Adjusting MACS3 --slocal and --llocal parameters for small-genome organisms like S. cerevisiae?
yeast poisson chip-seq macs3 peak-calling
written by kalavattam • kalavattam
1 vote
1 reply
1.1K views
Why does the AD value of my VCF file display 3 values?
gatk vcf snpeff
updated by Jeremy Leipzig Jeremy Leipzig • written by mgranada3 • mgranada3
0 votes
0 replies
711 views
Normalising and splitting TCGA data into train and test sets
rna-seq vst deseq2 tcga
written by RajSehmbi • RajSehmbi
0 votes
3 replies
2.5K views
Integrate several multiome objects
scatac-seq multiome seurat scrna-seq
updated by GenoMax GenoMax • written by Sky • Sky
2 votes
2 replies
1.4K views
Resources for pangenome?
pangenome
updated by colindaven colindaven • written by guntul • guntul
0 votes
2 replies
1.5K views
Extracting normalized counts from RDS (Seurat) file
seurat scrna-seq harmony snrna-seq
updated by Ming Tommy Tang Ming Tommy Tang • written by uyeiveycdikcdukyoz • uyeiveycdikcdukyoz
0 votes
2 replies
1.1K views
Weird correlation between RIP-seq replicates
rip-seq transformation rna-seq deseq2
updated by DGTool • DGTool • written by Hiba • Hiba
1 vote
3 replies
6.3K views
fgsea tutorial issue with BiocParallel
r rna-seq
updated by cwwong13 • cwwong13 • written by 1769mkc 1769mkc
0 votes
1 reply
1.1K views
Less stringent way of calling variants in PacBio data
bcftools snps variant pacbio 10x
updated by dthorbur dthorbur • written by TheCatalyst • TheCatalyst
0 votes
2 replies
1.2K views
Data management of cellranger output
cellranger
written by Lluís R. Lluís R.
0 votes
1 reply
967 views
How to handle Single-Level Batch Variable for Batch Correction in RNA-Seq Data
combat rna-seq batch-correction
updated by Ram Ram • written by Nelo • Nelo
0 votes
5 replies
1.6K views
How to get APIs or use web-based bioinformatics tools remotely.
api arnold g2dpepper
updated by GenoMax GenoMax • written by Saransh • Saransh
0 votes
4 replies
2.9K views
Do I have to trim anything before I run MAGeCK?
mageck
updated by yc27626 • yc27626 • written by leranwangcs • leranwangcs
0 votes
6 replies
2.0K views
Remote BLASTx : Strain specific search.
strain_specific_search blastx blast
written by Saransh • Saransh
0 votes
0 replies
3.7K views
prokaryote promoter prediction software
promoter-prediction bacteria prokaryote
updated by Saransh • Saransh • written by jk • jk
0 votes
0 replies
567 views
News: ICOBLET 2024
conference
written by mohamedsalahamine.benouar • mohamedsalahamine.benouar
0 votes
1 reply
1.3K views
VG Giraffe does not map reads < 39 bases
mapping variation-graph giraffe vg
updated by Ram Ram • written by jdru • jdru
0 votes
1 reply
840 views
Maker genome softmask
maker genome softmask plant
updated by biofalconch biofalconch • written by san96 • san96
0 votes
2 replies
948 views
How to merge two species of scATAC data
10xatac cross-species
written by 星月 • 星月
0 votes
3 replies
1.5K views
Assistance with Identifying Human Orthologs of Catle SNPs
orthologs snps catle human
updated by GenoMax GenoMax • written by Star:) • Star:)
1 vote
3 replies
1.8K views
GSEA single cell
gsea scrna-seq
updated by Picasa Picasa • written by SHP • SHP
0 votes
0 replies
471 views
integrate two already processed 10x multimodal objects - problem
multiome
updated by GenoMax GenoMax • written by Sky • Sky
0 votes
0 replies
964 views
How to use compareCluster ?
gsea rna-seq clusterprofiler deseq2
updated by Ram Ram • written by b8177 • b8177
0 votes
0 replies
898 views
Job: Director of Genomics (full time, remote, non-profit)
microbiology genetics
updated by Ram Ram • written by mmanzella • mmanzella
0 votes
0 replies
661 views
Good Primers on Ancestry Methods for Humans
ancestry snv human-genome
updated by Ram Ram • written by sviatoslav.kendall sviatoslav.kendall
1 vote
2 replies
1.7K views
GGTree flips my trees
r ggtree phylogenetics
written by M. • M.
0 votes
1 reply
1.5K views
single cell multi-modal data (CITEseq) batch correction
sccite scrna batch
updated by d.guillotin • d.guillotin • written by nn • nn
0 votes
2 replies
929 views
Do I Need to Filter Indels Before Annotation in GATK Funcotator?
gatk annotation funcotator
written by George • George
0 votes
0 replies
523 views
Metabolomics data (Mass spectrometry data) analysis from metabolomics workbench
metabolomics xcms metabolomics-workbench ms-data camera
written by microorganism_001 • microorganism_001
0 votes
1 reply
1.0K views
verifyBAMID in snakemake script error
config snakemake bam vcf verifybamid
updated by Jesse • Jesse • written by Peter Chung Peter Chung
0 votes
0 replies
590 views
Why are total read counts of KrakenUniq different from Kraken2?
krakenuniq kraken2
updated by GenoMax GenoMax • written by Sarrah Rose • Sarrah Rose
0 votes
0 replies
505 views
ReactomeGSA adjustment for confounding variables
pathway-analysis reactomegsa batch-effect
updated by Ram Ram • written by Shaimaa Gamal • Shaimaa Gamal
0 votes
6 replies
3.1K views
Cacoa with Seurat analysis
cacoa differential-abundance seurat
updated by GenoMax GenoMax • written by Aditya • Aditya
0 votes
3 replies
2.0K views
Ancestry estimation using 1000 genomes as reference
ancestry plink 1000genomes
updated by Jeremy Leipzig Jeremy Leipzig • written by kasgel • kasgel
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