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0 votes
4 replies
1.7K views
How can I call somatic CNV in tumor and matched normal sample
tumor normal somatic-cnv
updated by Ram Ram • written by Smilesky • Smilesky
1 vote
2 replies
1.0K views
How far pangenome from being the mainstream?
pangenome
updated by dsull dsull • written by guntul • guntul
0 votes
0 replies
634 views
Bandage visualization of the transcriptome
trinity transcriptomics bandage rna-seq
updated by Ram Ram • written by Lada • Lada
0 votes
1 reply
838 views
Looking for ressource/database of gene expression matrix for PDX mapped over human AND mouse
database pdx
written by ZheFrench ZheFrench
0 votes
14 replies
5.1K views
RNA-Seq mutation calling without germline data
rna-seq mutation
updated by littlebioinformatician • littlebioinformatician • written by marionette.kent • marionette.kent
0 votes
0 replies
445 views
Can't merge snATAC samples
snatac
written by myoui3122010 • myoui3122010
0 votes
12 replies
11K views
how to run freebayes in multi-thread
vcf freebayes multi-thread
updated by GenoMax GenoMax • written by marongiu.luigi marongiu.luigi
1 vote
0 replies
606 views
News: Landscape Genomics course in Poland (January 20-24)
r localadaptation sambada landscapegenomics lfmm
written by Physalia-courses Physalia-courses
0 votes
1 reply
966 views
PennCNV step1.1 error
xml apt-probeset-genotype penncnv cel apt
updated by Volter • Volter • written by jaredgichohi • jaredgichohi
2 votes
11 replies
3.1K views
Tool: A simple and lightweight tool for filtering csv file wirtten in Rust
gtf tab gff vcf csv
updated by Matthias Zepper Matthias Zepper • written by dwpeng • dwpeng
0 votes
1 reply
2.8K views
How can I convert a MAF of HAL (from cactus-hal2maf) to Multiple FASTA?
maf cactus
written by Mimi33 • Mimi33
0 votes
4 replies
2.6K views
generating transcript to gene mapping with unhelpful GFF3 file
salmon rnaseq transcriptome gff3
updated by jayeshkumarsundaram • jayeshkumarsundaram • written by thomas.welch • thomas.welch
0 votes
0 replies
494 views
Pseudohaplotype assembly with Hifiasm and sex chromosomes from XY specimen
hifiasm
written by acarter • acarter
0 votes
5 replies
7.2K views
How does edgeR's filterByExpr work?
edger
updated by Gordon Smyth Gordon Smyth • written by Haad • Haad
0 votes
1 reply
701 views
NeuronChat: identifyCommunicationPatterns_Neuron() error
r neuronchat
written by sooni • sooni
0 votes
4 replies
1.6K views
BaseRecalibrator User error.
gatk mutect2
updated by shems2001 • shems2001 • written by ChumBucket2024 • ChumBucket2024
2 votes
2 replies
1.6K views
Difference between gam and sam/bam files?
bam pangenome gam sam
written by Uveyik • Uveyik
0 votes
1 reply
984 views
Pre-imputation checks using 1000G data (hg19) for a hg38 VCF
preimputaitoncheck
updated by bk11 • bk11 • written by guoweidora • guoweidora
1 vote
1 reply
972 views
Resources for learning Machine Learning to create clinical predictive models.
machine-learning ai
updated by Ram Ram • written by egascon • egascon
0 votes
6 replies
2.3K views
Installing Mesquite on Linux
linux mesquite java phylogeny
written by Begonia_pavonina • Begonia_pavonina
0 votes
1 reply
820 views
Tools for assigning putative enhacers to respective genes
chip-seq
updated by jared.andrews07 jared.andrews07 • written by alejandrocastillaibeas • alejandrocastillaibeas
0 votes
1 reply
929 views
GC content files download
gc-content
updated by GenoMax GenoMax • written by KABILAN • KABILAN
0 votes
0 replies
458 views
differential abundance of two groups using one sample in one of the groups
amplicon_sequencing differential_abundance picrust2 soil_microbiome
written by michele.lamprillo • michele.lamprillo
0 votes
1 reply
1.6K views
Removing conda environment created in a snakemake workflow
snakemake
updated by DBScan • DBScan • written by hpapoli hpapoli
0 votes
7 replies
1.9K views
Genome Assembly Workflow assessment
flye genome-assembly pilon racon
written by SomeOne • SomeOne
0 votes
1 reply
676 views
which is the best cnv tool for both germine and somatic
cnv
updated by GenoMax GenoMax • written by Smilesky • Smilesky
0 votes
1 reply
1.0K views
Filtering Fastq based on GC content
fastq
updated by GenoMax GenoMax • written by hpapoli hpapoli
0 votes
1 reply
1.2K views
Job: Postdoctoral fellow in computational cancer genomics- University of Gothenburg, Sweden
cancer-genomics gwas postdoc
updated by Ram Ram • written by abhishekniroula7 abhishekniroula7
0 votes
0 replies
472 views
metatranscriptome analysis pipeline
metatranscriptome
written by SHIRUI • SHIRUI
0 votes
18 replies
7.0K views
Interpreting phylogenetics tree
phylogenetic-tree itol phylogenetics
updated by Mark Mark • written by davidmaimoun • davidmaimoun
0 votes
7 replies
2.7K views
cellranger count error:An extremely low rate of correct barcodes was observed for all the candidate chemistry choices for the input
cellranger
written by CRISPYCC • CRISPYCC
0 votes
7 replies
1.7K views
ncRNA, pseudogenes and lncRNA genes in highly variable features ( scRNA)
single-cell
updated by dsull dsull • written by carolofharvest • carolofharvest
0 votes
1 reply
732 views
How to find overlapping regions of a gene and 18s rRNA sequences for mouse
blast
updated by GenoMax GenoMax • written by carolofharvest • carolofharvest
0 votes
1 reply
838 views
Plotting the control-FREEC data
control-freec cnvs
updated by RD • RD • written by sainavyav22 • sainavyav22
0 votes
4 replies
1.3K views
Grenedalf - error reads sam, bam, sync files
grenedalf pool-seq
updated by Ram Ram • written by Elizabeth • Elizabeth
0 votes
2 replies
1.0K views
GAM file columns?
pangenome gam
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Uveyik • Uveyik
0 votes
4 replies
1.5K views
Trim galore error - directory completely empty
trimgalore
updated by GenoMax GenoMax • written by x • x
0 votes
0 replies
509 views
Keep seeing same degs everytime after filtering and clustering (scRNA)
single-cell
updated by Ram Ram • written by carolofharvest • carolofharvest
0 votes
1 reply
880 views
Proxy Variant SNP for PRS
snp prs proxy
updated by Sam Sam • written by curious_butterfly • curious_butterfly
1 vote
2 replies
743 views
Identify unique amino acids in a seuence of interest present in a MSA block
multiple-alignment-sequence
updated by b.contreras.moreira • b.contreras.moreira • written by sushmitapaul007 • sushmitapaul007
0 votes
2 replies
1.1K views
GenomicsDBImport with sample map in snakemake
snakemake
written by hpapoli hpapoli
0 votes
8 replies
2.0K views
Beagle Gives Error no matter what i do
beagle impute snps
written by Emilie • Emilie
0 votes
7 replies
3.3K views
Snippy does not find SNPs I know are present
snippy-multi snippy snps
updated by Michael Dondrup Michael Dondrup • written by blur blur
0 votes
11 replies
3.8K views
KeepBothReads in Trimmomatic
trimmomatic pe-reads
written by mariannapauletto • mariannapauletto
0 votes
0 replies
499 views
Hi-C Data and RNA-seq in a Non-Cell-Specific Context (Human Blood)
rnaexpression interactions repeats hi-c
written by Smriti • Smriti
0 votes
2 replies
1.4K views
golden genome NA12878
golden genome
written by heureuse • heureuse
0 votes
3 replies
1.7K views
samtools command not found in bash script
samtools alias
updated by dr_cfoster dr_cfoster • written by Meghan.T • Meghan.T
0 votes
1 reply
922 views
Interpreting MA plot - DEG
r deg ggplot2
updated by Ram Ram • written by NEWBIE • NEWBIE
2 votes
1 reply
2.2K views
Understanding behaviour of SCTransform in Seurat
seurat scrnaseq normalization
updated by alg507 • alg507 • written by yura.grabovska • yura.grabovska
0 votes
0 replies
1.2K views
Missing value where TRUE/FALSE needed in Seurat's IntegrateLayers(), unsure if error with Seurat or session
seurat
written by K • K
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