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0 votes
0 replies
633 views
RepeatMasker output file question
repeatmasker
written by xinguok794 1
1 vote
1 reply
1.1K views
Which GWAS tool to use that can work on Czech cases and British controls, on a binary trait?
plink2 gwas saige
updated by LChart 518 • | written by anita.szabo08 1
1 vote
2 replies
1.0K views
Unsure whether or not I overcorrected for batch effect in dataset
quality plot pca control
updated by GenoMax 16K • | written by Megan 6
0 votes
3 replies
1.3K views
Primer removal in amplicon sequencing
removal primer amplicon dada2 sequencing
updated by GenoMax 16K • | written by sxf520 0
0 votes
1 reply
1.9K views
GATK BQSR error — Reference and BAM file chromosome name mismatch (“chr” vs. no “chr”)
gatk vcf bsqr
updated by Ram 4.5K • | written by iamsmor 0
0 votes
1 reply
945 views
Batch correction without biological covariates
combat-seq rna-seq batch-correction
updated by Ram 4.5K • | written by as823jk 0
0 votes
3 replies
1.3K views
RagTag results
ngs scaffolding ragtag gaps
updated by shelkmike 201 • | written by synthiiihuh 0
0 votes
2 replies
849 views
Tools that output positions of matching kmers
sequences genomics kmers
written by gil.hornung 10
0 votes
4 replies
1.2K views
mitochondrial assamply use NOVOplasty
mitochondrial genome mammles
updated by dr_cfoster 125 • | written by m90 3
0 votes
3 replies
1.2K views
Still bad phred score after fastp
phred fastp
updated by Arup Ghosh 402 • | written by SpliceAndScript 0
0 votes
1 reply
859 views
Cytohubba problem and difference networks
network cytoscape cytohubba analysis
updated by Scooter 31 • | written by mastoreh 0
0 votes
1 reply
987 views
Cytoscape KEGG plots reverting to original layout after changing style or column
kegg cytoscape
updated by Scooter 31 • | written by Adrian 0
0 votes
6 replies
1.7K views
Mass-spectrometry proteomics
proteomics analysis
updated by Gordon Smyth 916 • | written by Nasim Gandomdoust 0
4 votes
3 replies
1.5K views
Biological meaning of metrics commonly used for QC in scRNA-seq?
ribosome qc velocity single-cell intron
updated by jared.andrews07 1.9K • | written by txema.heredia 31
0 votes
0 replies
815 views
News: Eukaryotic eDNA Metabarcoding Course (14–18 July, Online)
metabarcoding edna genomics nanopore
written by Physalia-courses 281
1 vote
12 replies
2.5K views
miRNA low mapping(Qiagen miRNA Library Prep)
qiagen pipeline trimming alignment mirna
updated by GenoMax 16K • | written by anthony.santana.703.j 3
0 votes
12 replies
3.4K views
STAR alignment not detecting some transcripts / custom reference
star bwa rna-seq alignment scrna-seq
updated by rfran010 174 • | written by npont 3
0 votes
0 replies
566 views
eHOMD database: Ref seq Aligned FASTA vs Full RefSeq?
homd database
written by bioinfo 6
0 votes
3 replies
1.5K views
pysam header and body
bam pysam view
updated by dariober 1.5K • | written by Matteo Ungaro 16
2 votes
1 reply
1.1K views
Discrepency in assembly sizes
pacbio assembly kmer
updated by shelkmike 201 • | written by hpapoli 17
0 votes
1 reply
793 views
fasterq-dump fails before completing lookup
lookup incomplete fasterq-dump
updated by GenoMax 16K • | written by nmannda148 0
0 votes
4 replies
1.5K views
ATACSEQ normlization for bigwig files
normalization atac-seq
updated by ATpoint 9.1K • | written by RD 3
0 votes
6 replies
1.7K views
finding gene sequence from WGS data
gene wgs
updated by swbarnes2 1.5K • | written by Bushra Bibi 8
0 votes
0 replies
653 views
Question about Protein-protein-DNA complex prediction
prediction protein
written by mickley413 0
0 votes
10 replies
3.5K views
Supergnova stuck in tutorial
genetic correlations python supergnova conda
updated by s.faria 0 • | written by Gerard 1
2 votes
4 replies
1.7K views
RNAseq meta-analysis to identify “consistently expressed” genes
meta-analysis method rnaseq
updated by mbyvcm 48 • | written by cgibbsm 2
1 vote
2 replies
991 views
pddg+odgi+vg to perform pangenome analysis to cyanobacteria
odgi pggb help pangenome vg
updated by GenoMax 16K • | written by snmdba 1
1 vote
2 replies
1.0K views
Comparing sets of genes for similarity
r jaccard genes marker clustering
written by yura.grabovska 94
0 votes
0 replies
892 views
News: Network Analysis in Systems Biology - 2 seats left
bioconductor systemsbiology r networkanalysis rnaseq
written by Physalia-courses 281
1 vote
5 replies
1.3K views
Running Unicycler with a merged fastq file
unicycler bacterial-genome assembly
updated by GenoMax 16K • | written by Assa Yeroslaviz 197
2 votes
5 replies
1.6K views
Assemblers for short read bacterial isolates data
data isolates assembly shotgun
updated by Mensur Dlakic 3.0K • | written by shevch2009 2
0 votes
2 replies
1.1K views
Biopython get_terminals() doesn't get all terminals
biopython tree get_terminals gtdb
written by khp35 0
0 votes
0 replies
986 views
Covariate Selection for DESeq2/ANCOM-BC: Alpha vs. Beta Diversity Findings
ancom-bc microbiome covariates deseq2 permanova
written by bioinfo 6
0 votes
1 reply
1.8K views
NF core rna-seq pipeline
nf-core nextflow pipeline rnaseq
updated by GenoMax 16K • | written by rajdeepboral00 7
0 votes
0 replies
817 views
Need Access to RadGraph2 Dataset from PhysioNet — Stuck at CITI Course Step
dataset
written by z.mohammadi64 0
3 votes
3 replies
1.7K views
Both up- and down-regulated gene sets return the same GO pathway analysis results?
deseq2 go-analysis
written by xqyn 6
0 votes
1 reply
988 views
Discrepancies calculatin average coverage with Bedtools and Mosdepth
mosdepth human bedtools libraries illumina
updated by Pierre Lindenbaum 17K • | written by María José 1
0 votes
7 replies
5.0K views
Michigan imputation server error
topmed vcf
updated by Joel Wallenius 22 • | written by AR 0
0 votes
8 replies
1.9K views
Proposal on CNV (Copies Variants Numer) analysis tools
number_variant somatic_data help copy
written by AIMAR 7
0 votes
2 replies
1.3K views
Error with bigWigAverageOverBed
usc human libraries illumina bigwigaverageoverbed
updated by Pierre Lindenbaum 17K • | written by María José 1
3 votes
13 replies
2.4K views
de novo chromosome level assembly
genome assembly chromsome
updated by colindaven 844 • | written by mthm 9
4 votes
2 replies
1.1K views
How is PLINK obtaining p-values and coefficients for linear regression
plink gwas
updated by GenoMax 16K • | written by sakura 4
0 votes
4 replies
1.2K views
bcftools not filtering snps
bcftools
written by Bushra Bibi 8
2 votes
2 replies
1.1K views
There are a way to align phage reads in to bacterial genomes?
alignment sequences reads
updated by GenoMax 16K • | written by schlogl 18
0 votes
5 replies
1.7K views
No index in the undetermined fastq file
bcl2fastq
written by 1769mkc 127
0 votes
0 replies
787 views
News: A Practical Introduction to R with the Tidyverse - Online 2–4 June
tidyverse r dataanalysis quarto ggplot2
written by Physalia-courses 281
3 votes
3 replies
1.2K views
TCGA Germline allelic fraction distribution
calling variant tcga
written by ramiro.barrantes 6
3 votes
4 replies
1.6K views
Issue in circular heatmap, the rows value are getting interchanged.
r circos heatmap circularheatmap
written by Yukta 3
1 vote
5 replies
2.3K views
How to preserve full FASTQ header through alignment and CRAM recovery
bam fastq cram
updated by GenoMax 16K • | written by curious 90
0 votes
3 replies
1.2K views
error in the output of bedops
human bedtools libraries illumina bedops
updated by GenoMax 16K • | written by María José 1
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