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0 votes
1 reply
2.7K views
Xenium multi sample data
xenium batch-effect annotation
updated by Ram Ram • written by Omics data mining Omics data mining
0 votes
0 replies
753 views
ggplot2 geom_density() density value estimates can be greater than 1?
r tpm density ggplot
written by Prawesh • Prawesh
0 votes
0 replies
709 views
Job: PhD position Integrated Modeling
modeling gene-regulation machine-learning
updated by Ram Ram • written by a.d.j.vandijk • a.d.j.vandijk
0 votes
2 replies
857 views
gene prediction
potato gene-prediction qingshu9
written by zhu • zhu
0 votes
0 replies
560 views
generating a genome reference fasta file
fasta bam reference
updated by Ram Ram • written by erl1977 • erl1977
0 votes
6 replies
2.3K views
More than 90% of variants were failed to match, using LiftoverVcf of Picard.
liftover liftovervcf picard
written by yoshidakoki • yoshidakoki
0 votes
2 replies
832 views
MAXLFQ peptide data analysis
chemoproteomics proteomics maxlfq
written by SHN • SHN
1 vote
4 replies
2.4K views
Minimap2 mapping problem
amplicon reference minimap2 mapping haplotype
written by Maximilian • Maximilian
0 votes
0 replies
733 views
Clustering single-cell CNV data
r clustering infercnv cnv scrna
written by yura.grabovska • yura.grabovska
0 votes
2 replies
1.5K views
BUSCO did not find any match. Retraining did not complete correctly. BUSCO analysis failed!
augustus pipeline maker annotation busco
updated by GenoMax GenoMax • written by Sony Nguyen • Sony Nguyen
0 votes
0 replies
684 views
How to identify the strongest eQTL for a gene in a specific tissue using GTEX?
eqtl gtex gtexv8
written by AAP • AAP
0 votes
3 replies
985 views
Filterbytile.sh - Exception in thread "main" java.lang.RuntimeException: Can't read file ...
illumina filterbytile java rna
updated by GenoMax GenoMax • written by duplessisantzel • duplessisantzel
0 votes
5 replies
2.0K views
Eukaryotic genome Assembly
genome-assembly masurca
updated by Ram Ram • written by manaswiniparija3 • manaswiniparija3
0 votes
0 replies
387 views
sounDMR DMR analysis package in R
soundmr asap dmr_analysis
written by praddyumnapdm • praddyumnapdm
0 votes
1 reply
1.3K views
Deconvolution of RNAseq (bulk) from skin samples
rnaseq skin-references deconvolution
updated by Wangering Hedgie • Wangering Hedgie • written by BlueSky • BlueSky
0 votes
0 replies
591 views
DNA methylation and plot manhattan
dna_methylation plot manhattan
written by fatii0ma • fatii0ma
1 vote
8 replies
2.5K views
Differential analysis of enrichment results
statistics enrichment
written by Aspire Aspire
0 votes
2 replies
1.9K views
Forum: scRNA-seq: Do people eliminate housekeeping genes for the sake of increasing algorithmic efficiency (and this speed)?
housekeeping-genes scrna-seq
updated by Ram Ram • written by Daniel • Daniel
0 votes
5 replies
2.5K views
best way to submit hpc job using snakemake
snakemake
written by QX • QX
0 votes
1 reply
1.0K views
Batch correction between cancer only data and normal only data
methylation batch-effect
updated by Ram Ram • written by Eren • Eren
0 votes
0 replies
447 views
Different methods of data normalisation produce different cluster markers
r dge seurat
updated by zx8754 zx8754 • written by ria.dashyan • ria.dashyan
1 vote
0 replies
618 views
Removal of samples with weird log-CPM distribution or voomWithQualityWeights?
voomwithqualityweights limma pca outliers
written by t.fortunato.asquini • t.fortunato.asquini
0 votes
1 reply
1.3K views
DESeq2 sizeFactor for Bacterial RNASeq
normalization bacteria rrna rnaseq
updated by swbarnes2 swbarnes2 • written by iXuan • iXuan
1 vote
2 replies
953 views
Basics: How do I generate a VCF file from a genome and annotate it with Clinvar
vcf fastq clinvar annovar
updated by colindaven colindaven • written by nanibito • nanibito
0 votes
3 replies
1.0K views
Chimeric reads analysis
ngs
updated by i.sudbery i.sudbery • written by biobiu biobiu
0 votes
0 replies
602 views
RepeatMasker without DNA transposons, satellites and SINEs
transposons dna repeatmodeler repeatmasker
written by san96 • san96
5 votes
7 replies
5.5K views
Ensembl Api: How To Print All Transcript Isoforms As A Multifasta Alignment
ensembl transcript isoform multiple fasta
updated by cmdcolin cmdcolin • written by 2184687-1231-83- 2184687-1231-83-
0 votes
6 replies
2.0K views
Issue with converting Affy IDs to gene IDs/symbols
biomart affymetrix geoquery microarray
updated by yura.grabovska • yura.grabovska • written by rbronste rbronste
0 votes
5 replies
1.7K views
adjusting pheatmap based on common genes
rna-seq heatmap
written by Meghan.T • Meghan.T
0 votes
4 replies
1.4K views
convert list to fasta format
python fasta
written by pinheirofabiano • pinheirofabiano
0 votes
0 replies
501 views
Large insertion sequence reconstruction from paired-end sequenced sample BAM files
reconstruction
written by Qboy • Qboy
0 votes
1 reply
741 views
4-way plot for comparing DEGs between 4 genotypes
deg
updated by dthorbur dthorbur • written by jaint1 • jaint1
0 votes
1 reply
1.5K views
How to concat multiple h5ad files into one
singlecell singlecellexperiment h5ad python anndata
updated by JC JC • written by Bioinformatics_begginner • Bioinformatics_begginner
0 votes
16 replies
2.8K views
Bacterial RNASeq doubts
samtools bacteria featurecounts rnaseq
updated by GenoMax GenoMax • written by Julián • Julián
1 vote
2 replies
1.2K views
How to figure out adapter sequence to use for trimming old miRNAseq data
paired-end fastq rna-seq mirna-seq trimming
written by hsothers • hsothers
0 votes
1 reply
1.4K views
Do I need to remove doublets after before or after running hashsolo?
hashsolo scanpy scrublet
updated by tothepoint tothepoint • written by bioinfo • bioinfo
0 votes
2 replies
1.1K views
Appropriate regression analysis for relationship of WGCNA modules with clinical traits
quantile linear wgcn polynominal eigengen
written by seta seta
0 votes
0 replies
640 views
News: Virtual Genome Assembly Workshop 7/15-18
assembly workshop genome instruction virtual
written by mia.nahom • mia.nahom
0 votes
0 replies
479 views
An article analyzing the differences in results caused by the use of dosage and hard call in GWAS
hard-called gwas dosage
written by Isaac • Isaac
1 vote
2 replies
3.9K views
Change the layout of the Venn diagram
r ggplot2 venn
updated by yura.grabovska • yura.grabovska • written by G.S • G.S
0 votes
3 replies
1.1K views
snakemake config file with path
snakemake
updated by pbioinf • pbioinf • written by QX • QX
0 votes
1 reply
763 views
Best 64 core CPU under 2000$
hpc cpu workstation
updated by Ram Ram • written by menyawino • menyawino
0 votes
6 replies
2.1K views
DESeq2 for DE analysis of proteins
proteomics deseq2
updated by dsull dsull • written by 4732b159 • 4732b159
0 votes
1 reply
705 views
Finding Insert in plasmid
bacteria assembly insert plasmid
updated by GenoMax GenoMax • written by SaltedPork SaltedPork
0 votes
4 replies
1.7K views
IGV - ChIP-Seq
bigwig igv bedgraph bed
updated by rfran010 • rfran010 • written by sk_24 • sk_24
0 votes
3 replies
1.9K views
Demultiplexing Tool
ngs fastq demultiplexing thermo
updated by rfran010 • rfran010 • written by adarsh • adarsh
0 votes
0 replies
390 views
Active and Decoy generation
dud pharmacophore_modeling alternatives
written by ruth • ruth
0 votes
1 reply
1.5K views
GATK GenomicsDBImport update database error using snakemake
genomicsdbimport snakemake gatk
updated by Jeremy Leipzig Jeremy Leipzig • written by Peter Chung Peter Chung
0 votes
1 reply
1.2K views
RNA-seq
server seq rna- galaxy
updated by zx8754 zx8754 • written by candy • candy
0 votes
1 reply
884 views
VCF file GL field confusion
bcftools format vcf genotype specification
written by mtrw85 • mtrw85
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