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0 votes
1 reply
638 views
GATK Mutect2
gatk mutect2 snp variant-calling
updated by Ram Ram • written by sk_24 • sk_24
0 votes
9 replies
1.5K views
Incompatibilities between GATK FastaAlternateReferenceMaker and agat_sp_extract_sequences.pl?
fastaalternatereferencemaker gatk agat
updated by samuel.a.odonnell samuel.a.odonnell • written by nmbaran • nmbaran
0 votes
1 reply
454 views
tensorQTL AssertionError
tensorqtl eqtl meqtl
updated by Jeremy Leipzig Jeremy Leipzig • written by titangerd • titangerd
1 vote
1 reply
493 views
miRNA Analysis
mirna geneexpression rnaseq mirnaanalysis
updated by GenoMax GenoMax • written by Pritesh • Pritesh
0 votes
3 replies
922 views
RNA splicing analysis
rna-seq splicing
updated by i.sudbery i.sudbery • written by shafi98 • shafi98
0 votes
0 replies
437 views
Forum: Bioinformatics opportunities in Germany
job search germany bioinformatics
written by eyaggelia146 • eyaggelia146
0 votes
0 replies
387 views
News: Unix and Shell Scripting for Bioinformatics course - online, 12-16 January
shell conda unix scripting bash
written by Physalia-courses Physalia-courses
0 votes
1 reply
584 views
Using blacklist in sarek pipeline
sarek tmb
updated by Pierre Lindenbaum Pierre Lindenbaum • written by giacomo.bregni • giacomo.bregni
1 vote
2 replies
817 views
Handling extra contigs after long-read bacterial genome assembly
nanopore busco plasmids genome-assembly bacterial-genomes
updated by samuel.a.odonnell samuel.a.odonnell • written by Paulina • Paulina
0 votes
1 reply
451 views
Building a hidden markov model from synthetic protein designs
structural-designs msa hmm proteins
updated by Joe Joe • written by v.berriosfarias • v.berriosfarias
0 votes
2 replies
859 views
Bioinformatics python
python
written by ogunjinmirashidat • ogunjinmirashidat
0 votes
6 replies
1.7K views
Exclude from analyzing rna-seq samples
rna-seq
written by dropswater • dropswater
1 vote
1 reply
717 views
Running psiblast on AWS with ElasticBlast
psiblast blast
updated by GenoMax GenoMax • written by Joshua • Joshua
0 votes
2 replies
693 views
degradome data adapter removal
degradome fastqc adapter
written by 1000-Logan • 1000-Logan
0 votes
5 replies
2.0K views
Sequencing run and batch variation
rna seq
updated by GenoMax GenoMax • written by bioinfo • bioinfo
0 votes
1 reply
680 views
Why does including BQ<10 bases change Mutect2 calls in NovaSeq X Plus ctDNA data?
novaseq ctdna mutect2 variant-calling
updated by GenoMax GenoMax • written by Anthony • Anthony
0 votes
0 replies
325 views
CHEMBL single proteins and complexes indexing
chembl cdk1
written by jain72744 • jain72744
0 votes
5 replies
1.6K views
Braker Gene Annotations Post-processing
annotations braker3 fungi
updated by GenoMax GenoMax • written by SomeOne • SomeOne
0 votes
16 replies
9.4K views
STAR genome index problem
rna-seq sequencing genome
updated by Ram Ram • written by Ricky • Ricky
0 votes
3 replies
1.9K views
Using RepeatModeller and RepeatMasker for Multiple Gastropod Genomes: Is a Single Repeat Library Sufficient?
genome-annotation repeatmodeller repeatmasker
updated by SomeOne • SomeOne • written by Rohan • Rohan
0 votes
0 replies
491 views
News: Check our In-Person or Online NGS Data Analysis Courses for 2026
rnaseq dnaseq single-cell epigenomics nextflow
updated by Ram Ram • written by ecSeq Bioinformatics • ecSeq Bioinformatics
0 votes
2 replies
841 views
microRNA on the NCBI
ncbi microrna
updated by Corentin Corentin • written by m.esmaeilpour • m.esmaeilpour
0 votes
0 replies
385 views
Gene Significance and kME cutoffs for hub genes
hub-gene wgcna
written by Max Zheng • Max Zheng
0 votes
0 replies
343 views
News: Conservation Genomics workshop - 7-10 April (online)
populationgenomics snps conservationgenomics inbreeding
written by Physalia-courses Physalia-courses
3 votes
15 replies
4.7K views
Tool: Programming language trends in bioinformatics (2008–2025)
bioinformatics programming-languages
written by skyresearch • skyresearch
0 votes
0 replies
426 views
Seeking feedback from users of PGAP2
panaroo pan-genome roary prokaryotic
written by Jaykumar • Jaykumar
1 vote
0 replies
713 views
Tool: FlashDeconv: Ultra-fast spatial transcriptomics deconvolution for Visium HD (1M spots in 3 minutes)
spatial-transcriptomics
written by Caffery • Caffery
0 votes
0 replies
369 views
How to associate severity to sQTL
sqtl qtltools
written by Priyanka • Priyanka
0 votes
2 replies
1.1K views
Strategy for noisy ATAC-seq: Fragment size selection for pioneer factor DA analysis
deeptools deseq2 atac-seq bam
written by Abeer H • Abeer H
0 votes
4 replies
1.7K views
Tool: For anyone struggling with messy single-cell data, CyteType is worth a look
annotation scrna-seq
updated by theodore theodore • written by sukhitha.basnayake • sukhitha.basnayake
0 votes
0 replies
745 views
Job: Data Science Engineer at Berkeley Lab
computerscience bioinformatics dataengineer machinelearning datascience
written by BerkeleyLab • BerkeleyLab
0 votes
3 replies
1.4K views
Seeking literature on mapping 27k/450k/EPIC methylation array probes to hg38 for epigenetic aging research
methylation hg38 epigenetics bioinformatics aging
updated by jared.andrews07 jared.andrews07 • written by huangyiming • huangyiming
0 votes
0 replies
480 views
Job: Full Time Genetics Post-doctoral Associate, University of Minnesota
associate post-doctoral
written by Al • Al
0 votes
1 reply
726 views
News: Virtual RAD-seq Analysis Workshop (UConn CBC, Dec. 16 -18)
workshop rad-seq training variants
written by bioadam • bioadam
0 votes
1 reply
720 views
How can I obtain PAM50, IHC Receptor, and Expression TPM data from TCGA BRCA for RNA Seq Data
rna-seq breast cancer tcga
updated by i.sudbery i.sudbery • written by Parth • Parth
0 votes
2 replies
1.6K views
Issues with T2T in pigeon prepare from isoseq
long-read isoseq rna-seq
updated by Zikun-Yang • Zikun-Yang • written by SethJ • SethJ
0 votes
0 replies
384 views
News: Workshop: Virtual RAD-seq, January 13–15
uconn radseq bioinformatics genomics workshop
written by zsc25001 • zsc25001
0 votes
2 replies
1.4K views
How to detect a duplication from IGV
igv coverage duplication mapping
written by pailloufat • pailloufat
1 vote
1 reply
1.4K views
I'm trying to understand common bottlenecks in going from gene lists (RNA-seq DEGs, GWAS hits) to biological insights.
workflow tool pathway-analysis literature enrichment
updated by i.sudbery i.sudbery • written by oluwafemi • oluwafemi
0 votes
7 replies
2.2K views
Finding Transcription factors from a set of genes list
rna-seq transcription factor degs
updated by i.sudbery i.sudbery • written by rajdeepboral00 • rajdeepboral00
1 vote
0 replies
477 views
Tool: EDTA-Audit-Tool: A smart QC utility for checking bulk EDTA (TE annotation) results
transposable_element edta quality_control
written by Aa • Aa
0 votes
1 reply
751 views
umitools dedup and quality filtering
umitools filtering wgs quality deduplication
updated by i.sudbery i.sudbery • written by song • song
0 votes
1 reply
738 views
RNA-seq normalization for time-dependent analysis
rna-seq normalization
updated by i.sudbery i.sudbery • written by luca.sclisizzo • luca.sclisizzo
0 votes
0 replies
402 views
Calculating PRS in UKBiobank using PGSC_Calc
polygenic pgsc_calc genomic ukbiobank prs
updated by GenoMax GenoMax • written by christiantd • christiantd
1 vote
0 replies
407 views
Tool: New resource: curated plant (bell pepper, Capsicum annuum) RNASeq web portal
rnaseq
written by Bourumir • Bourumir
6 votes
6 replies
8.3K views
Open Reading Frame And Codons
orf sequence python codon
updated by CodonTable • CodonTable • written by Wilmer Garzon • Wilmer Garzon
1 vote
1 reply
811 views
Which method I should use to process cellranger data
seurat cellplex hashing cellranger
updated by Ram Ram • written by zizigolu zizigolu
0 votes
4 replies
919 views
GATK SelectVariants behavior with gvcfs
gatk selectvariants gvcfs
updated by Jeremy Leipzig Jeremy Leipzig • written by Gianfilippo • Gianfilippo
0 votes
4 replies
1.3K views
AGAT does not propagate DIAMOND functional annotations to BRAKER GFF3
diamond annotation braker genomics agat
updated by GenoMax GenoMax • written by Kinoppy • Kinoppy
0 votes
8 replies
1.9K views
ENCODE pipelines vs Nextflow/Snakemake: design choices and use cases
pipelines encode nextflow snakemake
written by DdogBoss • DdogBoss
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