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0 votes
1 reply
328 views
Which allele to use as effect allele for polygenic scores?
effect pgs gwas
updated by LauferVA 497 • | written by _quantum_girl_ 8
0 votes
2 replies
318 views
Where can I find mouse BAM files?
cnv grcm39 genome mouse mm39
updated by Matthias Zepper 524 • | written by Pipschroma 0
0 votes
2 replies
393 views
Alignment
s2 alignment extract
updated by GenoMax 16K • | written by Ra 0
0 votes
4 replies
988 views
ascp suddenly fails with failed to authenticate – worked before with same setup
ascp
updated by GenoMax 16K • | written by wzzzling 1
0 votes
1 reply
1.0K views
Run TSS predator without TEX wig libraries
rna-seq sequencing next-gen software error
updated by mwittep 0 • | written by qstefano 2
0 votes
1 reply
721 views
Anyone have knowledge of TSS Predator ??
usage predator prediction plants tss
updated by mwittep 0 • | written by nikhil 2
0 votes
2 replies
310 views
How to get mouse genomes to test CNV tools with?
cnv grcm39 genome mouse cnvtools
written by Pipschroma 0
0 votes
1 reply
310 views
Issues with the new PHASTEST web tool
phages draft-genomes
updated by Roshan 1 • | written by anna.licitra 0
0 votes
0 replies
134 views
GSEA for metagenomic data
ora metagenome deseq2 gsea fgsea
written by young_bioinformatician 25
0 votes
2 replies
419 views
MEGAHIT assembly k-mer exceeds read length – is the result still reliable?
megahit assembly
written by vibryschaan 0
0 votes
4 replies
1.1K views
News: FINAL CALL - 10th Berlin Summer School in NGS Data Analysis (June 2026, in-person, Berlin)
fastq variantcalling differentialexpression bam
written by ecSeq Bioinformatics 9
0 votes
7 replies
853 views
Aligning short reads using STAR
rna-seq alignment splice star deseq2
updated by LauferVA 497 • | written by bm.nina 1
0 votes
0 replies
104 views
Missing ML/PL FORMAT fields in GVCFtyper joint calling output (Ultima Genomics + DNAscope)
jointcalling ultimawgs
updated by GenoMax 16K • | written by SeoG 1
2 votes
15 replies
5.2K views
fast way to get last position in a large indexed VCF?
bcftools
updated by bgulko2 2 • | written by curious 90
0 votes
3 replies
409 views
Formatting annotated genomes for submission to NCBI
ontology genome sequin protein submission hypothetical
written by jaredbernard 3
0 votes
0 replies
93 views
Help with find_circ troubles
circrna find_circ
written by Eduarda 0
0 votes
1 reply
173 views
Tool: Stargazer - open-source, agentic workflow orchestration for computational biologists
orchestration
updated by ATpoint 9.1K • | written by pryce.turner 1
0 votes
1 reply
338 views
News: Courses on Spatial Omics in 2026
singlecell spatialomics computationalbiology
written by Physalia-courses 281
0 votes
1 reply
181 views
DNASeq pipeline analysis
rna dneseq
updated by ATpoint 9.1K • | written by SHN 4
1 vote
18 replies
17K views
Hifiasm is getting killed while trying to assemble a genome
assembly genome hifiasm
updated by Bharat K. C. Patel 11 • | written by pranavdatar01 1
0 votes
2 replies
323 views
Tutorial: Stop writing ggplot2 code. Make publication figures directly in Excel
ggplot excel statistic visualization r
written by Aki 2
0 votes
3 replies
448 views
VG Crash with HPRC V2.0 Graph and Indexes
vg
updated by Jouni Sirén 85 • | written by Alexandria A. 0
1 vote
2 replies
259 views
News: Recurring amino acid clustering pattern in >160,000 protein structures: looking for independent visual confirmation
bioinformatics amino-acids citizen-science protein-structure structural-biology
written by FranciscoJLoboCab 1
0 votes
3 replies
445 views
GATK SNP calling from BAM
vg
updated by dario.galanti92 1 • | written by zhengluo 0
0 votes
0 replies
72 views
Ligand breaking after docking
error docking
written by avnim 1
0 votes
4 replies
367 views
Kallisto low alignment rate
rna rnaseq kallisto
updated by dsull 781 • | written by Gerard 2
0 votes
5 replies
358 views
Does increased heterozygosity from contaminating DNA lead to over-estimated KING relatedness?
king heterozygosity kinship relatedness contamination
written by Joel Wallenius 22
0 votes
4 replies
344 views
how to convert whole genome sequencing datasets to use for GWAS
gwas gapit r
written by ngseq 0
0 votes
0 replies
156 views
News: Causal AI Methods for Computational Biology
casualinference computationalbiology ai
written by Physalia-courses 281
0 votes
3 replies
235 views
Impact of HPO term completeness on Exomiser ranking
genomics sequencing analysis ngs
written by sameer 4
0 votes
2 replies
194 views
DP distribution plotting
filtering dp distribution vcf
written by Floky 0
0 votes
1 reply
141 views
Query on graph analysis and understanding
graph-analysis
updated by Ram 4.5K • | written by Ekta 0
1 vote
8 replies
443 views
An exon frameshift that doesn't effect the gene?
exon frameshift
written by Jaden 2
0 votes
8 replies
544 views
How dispersion is used in EdgeR
edger regression binomial negative dispersion
updated by Gordon Smyth 916 • | written by joelking 0
0 votes
2 replies
672 views
Best way to extract SNPs and INDEL from multiple samples
gwas wgs ngs
written by ngseq 0
0 votes
2 replies
337 views
Practice for combining multiple host genomes for BWA host removal
bwa removal host
updated by GenoMax 16K • | written by jay 0
6 votes
23 replies
1.7K views
Forum: What is your best "If only I'd known about this feature sooner" moment?
software igv
updated by dariober 1.5K • | written by crisime 35
0 votes
19 replies
4.5K views
MacOS Quicklook plugin for gtf and gff3 files?
gtf gff3 macos
written by kalavattam 85
0 votes
3 replies
266 views
BWA MEM output has read1 sequence written into read2 record — input FASTQs are correctly paired
bwa
written by vibryschaan 0
0 votes
0 replies
83 views
Should depot (tissue type) be included as a covariate in batch effect correction for bulk RNA-seq data?
batcheffect rnasequencing transcriptomics
written by Dimitris 0
0 votes
0 replies
98 views
questions about loeuf plugin setup for VEP tool
vep_tool vep loeuf ensembl
written by evbat 0
0 votes
1 reply
201 views
Filtering KofamScan output for KEGGDecoder usage
shotgun data mags keggdecoder kofamscan
updated by andres.firrincieli 412 • | written by sveta5678 0
0 votes
1 reply
149 views
How to amplify prey cDNA library for Yeast two Hybrid (y2h)?
y2h
updated by GenoMax 16K • | written by Usama 0
1 vote
3 replies
315 views
Does TCGA actually have germline vcfs?
mutations germline tcga
updated by LauferVA 497 • | written by mrk 2
0 votes
1 reply
129 views
rnaseq trimming
trimming rnaseq
updated by GenoMax 16K • | written by murheisa 0
0 votes
1 reply
117 views
merging chromosome zarr stores - will this work?
zarr python scikit-allel
updated by GenoMax 16K • | written by mcrepeau 2
0 votes
0 replies
72 views
Mapping taxa with moderate to sparse loci coverage to reference backbone tree
downstream analysis
written by katstancity 0
0 votes
3 replies
1.5K views
deconvolution of spatial transcriptome
deconvolution spatial transcriptome
updated by mmorillo 0 • | written by Omics data mining 26
0 votes
0 replies
87 views
PSMC without bootstrap and with bootstrap give me different temporal resolutions
psmc
written by André Pereira 0
0 votes
2 replies
1.2K views
PySCENIC - Running on a single TF?
grn transcription_factor scenic transcriptomics
updated by Arup Ghosh 402 • | written by joshua.rubin 0
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