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2 votes
0 replies
26K views
Herald: The Biostar Herald for Monday, November 11, 2024
herald
written by Biostar Biostar
0 votes
1 reply
842 views
color specific genes in VariableFeaturePlot
ggplot2 variablefeatureplot seurat
updated by Bastien Hervé Bastien Hervé • written by Assa Yeroslaviz Assa Yeroslaviz
0 votes
0 replies
511 views
Mapping gene symbols to MONDO codes
mondo genes mapping
written by CRivi • CRivi
0 votes
0 replies
1.3K views
Blog: Tools and Future of eQTL: Data Gathering and Application in Genetic Medicine
eqtl snps gwas
written by Novogene • Novogene
1 vote
1 reply
1.1K views
Strategy to find transgene copy number and integration sites using only Nanopore simplex reads?
sequencing transgenes ngs
updated by colindaven colindaven • written by Mark • Mark
0 votes
4 replies
1.5K views
Where can I download a BED file with exonic regions?
exome bed
updated by Pierre Lindenbaum Pierre Lindenbaum • written by njornet • njornet
0 votes
2 replies
1.1K views
cellranger error - insufficient disc space allocated to cellranger
cellranger
updated by yura.grabovska • yura.grabovska • written by tony_88888 • tony_88888
0 votes
1 reply
978 views
Pigeon make-seurat produces empty output
isoseq pigeon pacbio
updated by yura.grabovska • yura.grabovska • written by TheCatalyst • TheCatalyst
0 votes
0 replies
493 views
Germline CNV CALLING
germline cnv
updated by GenoMax GenoMax • written by Smilesky • Smilesky
0 votes
0 replies
565 views
Packages for constructing Phylogenetic tree from HapMap file
hapmap tree phylogenetic snp
written by sujee119 • sujee119
0 votes
5 replies
3.8K views
How Do I create a BED file from an hard masked fasta?
genome sequencing
updated by hewm2008 • hewm2008 • written by marcofraca • marcofraca
0 votes
1 reply
1.2K views
What is the reason that all high throughput sequencing data for the human brain is snRNA-seq instead of scRNA-seq ?
10x scanpy python single-cell anndata
updated by jared.andrews07 jared.andrews07 • written by AlexStar • AlexStar
0 votes
2 replies
856 views
Picard LiftoverVCF Maps Variants to Incorrect Chromosomes When Processing Individual Chromosomes
liftovervcf
written by jonas.andersson • jonas.andersson
0 votes
0 replies
717 views
News: Master Evidence Synthesis with Meta-analysis in R (Online Course - Feb 10-14, 2025)
meta-analysis review evidence-synthesis
written by Physalia-courses Physalia-courses
0 votes
3 replies
1.0K views
PCA plot
fviz_pca factoextra
updated by Bastien Hervé Bastien Hervé • written by 4732b159 • 4732b159
0 votes
8 replies
2.3K views
NGS data analysis
ngs eukaryotic
written by Acervo • Acervo
0 votes
0 replies
641 views
Intersect between bedGraph and bed file
count bedtools bedgraph matrix
written by daffodil • daffodil
1 vote
0 replies
675 views
is there any data base or reference to provide a comprehensive list of CD marker expression in different white blood cell types?
deg myeloid cdmarker leukocyte
written by qasemi.m.q • qasemi.m.q
0 votes
2 replies
1.5K views
How to interpret that overrepresented and duplicate sequences influence %GC content?
duplicates fastqc multiqc fastq gc
written by tvibhaps • tvibhaps
0 votes
0 replies
607 views
Should we normalize/transform WGBS beta values?
normalization wgbs methylation transfromation
written by Lalaland • Lalaland
0 votes
4 replies
1.4K views
What is the best way to confirm if a mutated gene is more frequent in recurrence group than in baseline?
statistics compare_groups gene_count
written by Lila M Lila M
0 votes
0 replies
562 views
How to combine replicates in profile plot in profileplyr package?
atac-seq profileplot profileplyr
updated by GenoMax GenoMax • written by B.N. • B.N.
0 votes
2 replies
1.8K views
No Cluster ID's present when making UMAP for Joint RNA and ATAC analysis: Signac 10x multiomic tutorial
multiomics snatacseq snrnaseq
written by bgbs • bgbs
0 votes
0 replies
526 views
Phasing alleles with SHAPEIT4: cases and controls together or separately?
cases-controls separately together case-control phasing
written by igor.alcaras • igor.alcaras
2 votes
1 reply
2.3K views
Is it better to phase two populations together or separately?
phasing beagle populations
updated by igor.alcaras • igor.alcaras • written by eyb eyb
0 votes
8 replies
2.4K views
SRAtoolkit --split-files output
sratoolkit sra fastq
written by tony_88888 • tony_88888
0 votes
0 replies
735 views
database of gmap file for GLIMPSE2 imputation
gmap glimpse2
written by cautree • cautree
0 votes
6 replies
2.5K views
Create a fasta and gtf file
gtf human genome fasta
updated by Juke34 Juke34 • written by ATRX ATRX
0 votes
2 replies
1.1K views
Regarding to Two-color microarray data analysis (DGE)
differential-expression-analysis
updated by Ram Ram • written by SHIRUI • SHIRUI
0 votes
12 replies
3.6K views
dedup STAR transcriptome file using umi_tools
rna-seq umi transcriptome umi_tools
written by ATRX ATRX
0 votes
1 reply
845 views
ChIP-seq signal values
values chipseq signal
updated by 1769mkc 1769mkc • written by sk_24 • sk_24
0 votes
0 replies
561 views
Speclib of Rattus novergicus (taxid 10116) to use in DIA-NN
proteomics
written by thalisommoreiraskt • thalisommoreiraskt
0 votes
1 reply
886 views
News: [Survey] Help Shape the Future of Genomic Data Storage Solutions!
genomics bioinformatics survey solutions storage
updated by Michael Dondrup Michael Dondrup • written by spacecow • spacecow
1 vote
1 reply
613 views
QQ plot with small bump in the middle
qq-plot.gwas
updated by Ram Ram • written by zhuzhu • zhuzhu
0 votes
3 replies
2.3K views
Confused by reference files
reference alignment
updated by GenoMax GenoMax • written by Nesma • Nesma
0 votes
4 replies
1.4K views
Contrasts for comparing condition within tissue
limma deseq2 edger contrasts
updated by SamGG • SamGG • written by Ben • Ben
0 votes
2 replies
1.1K views
How to Map NCBI taxid to Open Tree of Life ott_id Without Using Scientific Names?
taxonomy ott
written by Martín Ezequiel • Martín Ezequiel
0 votes
2 replies
1.3K views
Cellranger: Demux pooled (hashing antibodies) GEX and VDJ 10x sequence fastq data
hashing cellranger demux
written by Flipstone • Flipstone
0 votes
0 replies
686 views
Fixed peak width in ENCODE TFs ChIP-seq
macs2 chip-seq encode
written by DavideBrex • DavideBrex
0 votes
3 replies
1.2K views
Questions about finding similar genes and dissimilar genes in BLAST
e-value similarity blast
updated by biofalconch biofalconch • written by William • William
1 vote
3 replies
2.8K views
Question about variant calling method using pangenome-graph
vg
updated by Jouni Sirén Jouni Sirén • written by Marion • Marion
0 votes
1 reply
874 views
Are there specific pipelines for identifying solo-TIRs?
solo-tir elements transposable
updated by biofalconch biofalconch • written by Marcos • Marcos
0 votes
5 replies
2.3K views
Optical Duplicates
gatk markduplicates optical-duplicates
updated by Ram Ram • written by ebogen • ebogen
2 votes
2 replies
1.1K views
Tool: A notebook for checking relatedness and X heterozygosity from sequencing data
heterozygosity relatedness sequencing sex estimation
written by barslmn • barslmn
0 votes
0 replies
732 views
Signac for mgatk scRNA-seq data
mgatk signac scrna-seq
written by marco.barr • marco.barr
0 votes
0 replies
617 views
Homer annotatePeaks.pl output
start annotatepeaks.pl chr homer position
updated by GenoMax GenoMax • written by Rakesh • Rakesh
0 votes
2 replies
1.0K views
Extract gene_id and protein_id from .gtf file to create a list with them
gtf bash protein_id
written by Eduardo Oñate • Eduardo Oñate
0 votes
0 replies
577 views
GEOquery getGEO is normalized data or not?
getgeo geoquery microarray
written by tyasird • tyasird
0 votes
35 replies
7.6K views
Indexing a 2.6GB Plant Genome Using STAR (genomeGenerate Mode) Terminated Due to RAM Limit — Can the Genome Be Split for Indexing, or Are There Other Solutions?
star ran-seq bam genome indexing
updated by Dunois • Dunois • written by Vijith • Vijith
0 votes
3 replies
1.2K views
Tool: I Built a Simple Website to Help Researchers find Research Grants
web-application grants research funding
updated by GenoMax GenoMax • written by bitsofadventures • bitsofadventures
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