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0 votes
0 replies
655 views
bcftools run-roh error
roh bcftools
updated by GenoMax 16K • | written by 715c719f 1
0 votes
0 replies
920 views
News: Workshop: Virtual Single-Cell Transcriptomics, June 24–26
transcriptomics workshop uconn
written by zsc25001 1
0 votes
6 replies
1.3K views
How can I find KO IDs for ORF sequences from kofam_scan ?
kofam_scan
updated by Ram 4.5K • | written by Nikesh 0
0 votes
0 replies
818 views
VEP all genes are skipped due to invalid types
variants gtf vep annotation
written by Titus 91
0 votes
3 replies
1.7K views
Isoform analysis after quantification with Salmon/Star
star salmon isoform analysis
written by rajdeepboral00 7
0 votes
0 replies
987 views
Confidence in CIBERSORT (LM22) Deconvolution Output for Rare Cell Types — Best Practices?
lm22 deconvolution cibersort
written by Pumla 0
0 votes
7 replies
1.9K views
Significant reads loss after fastp
fastp loss reads
updated by GenoMax 16K • | written by SpliceAndScript 0
0 votes
1 reply
622 views
Shinyapps Server Down?
shinyapps posit
updated by GenoMax 16K • | written by Arup Ghosh 402
0 votes
2 replies
891 views
Data of microarray
microarray
written by Peter 0
0 votes
0 replies
1.6K views
How to run GSVA on scRNA-Seq analysis on multiple clusters and groups to compare per tumor sample?
gsva scrna-seq
written by Minh-Anh 1
2 votes
6 replies
2.7K views
Best Tool for Fast RNA-Seq Transcriptome Alignment to Extract Unmapped Reads
mapping rna-seq
updated by dsull 781 • | written by aboll 2
0 votes
2 replies
1.6K views
Time scaled tree with IQTree giving off looking branch length
bacteria phylogeny time evolution scaled
written by SushiRoll 14
1 vote
2 replies
937 views
Signature Matrix Modifications/Subclustering
signature matrix scrna-seq seurat cibersortx
written by MitchT 1
0 votes
2 replies
869 views
Picard CollectRawWgsMetrics runs much slower on non-Apple chip machine
picard
updated by Michael Dondrup 5.6K • | written by adixon3 0
0 votes
0 replies
594 views
Reporting Imputed SNPs in GWAS
impute gwas
updated by Ram 4.5K • | written by Aastha 0
0 votes
0 replies
726 views
Does Beagle use the reference genome for both phasing AND imputing genotypes?
beagle genotypes phasing imputation
written by giulia.trauzzi 3
0 votes
0 replies
590 views
In GERPplusplus, odd gerpelem outputs
gerp evolutionary gerpcol substitution gerpelem rates rejected
written by Begonia_pavonina 22
1 vote
2 replies
1.2K views
required annotations for VQSR
vqsr vcf annotation
written by Mahdi&Christ 2
1 vote
4 replies
1.2K views
Identify transgene insert loci/copy number in nanopore De-novo assembly
ont nanopore transgene sequencing wgs
written by ctmfarland 2
0 votes
9 replies
2.4K views
Heatmap for visualizing the differentially expressed genes in RNA-seq data
r deseq2 rna-seq differentially-expressed heatmap
written by KABILAN 13
0 votes
1 reply
889 views
single-cell differential expression of unbalanced cell number
seurat scrna-seq
updated by ATpoint 9.1K • | written by Yingying 6
0 votes
1 reply
1.3K views
Differential Expression tests for cell-type clusters from a single-cell RNAseq dataset with no biological replicates
cell-type deg de single-cell
updated by Yingying 6 • | written by aa23871x 0
0 votes
10 replies
1.7K views
Annotation Issue using miRBASE gff
ngs mirna
updated by GenoMax 16K • | written by anthony.santana.703.j 3
0 votes
0 replies
727 views
News: Evo 2 webinar - 1 day left to register
ai.llm.biology.genomics
written by Claire Watson 6
1 vote
6 replies
1.7K views
Error Scaffolding with RagTag
scaffold ragtag
updated by Michael Dondrup 5.6K • | written by Bipin 1
4 votes
0 replies
655 views
Tool: biothings-mcp - MCP server to query genes, variants, chemicals, taxons
api biothings genes ai mcp
written by Anton 14
2 votes
0 replies
563 views
Tool: synergy-age-mcp - a database of synergistic and antagonistic genetic interactions in longevity
combination longevity mcp ageing
written by Anton 14
2 votes
0 replies
617 views
Tool: opengenes-mcp - MCP server on the database for longevity genes
genes databases bioinformatics longevity mcp
written by Anton 14
2 votes
0 replies
627 views
Tool: gget-mcp - a bioinformatics toolkit for genomics queries and analysis (based on gget lbrary)
bioinformatics libraries mcp ai
written by Anton 14
0 votes
2 replies
896 views
Best pairwise alignment for insertion and deletion-containing sequences
sequence python biopython pairwise alignment
written by rbpdee 5
1 vote
7 replies
1.5K views
How to deal with intermediate files
procedures data operations
updated by GenoMax 16K • | written by ramiro.barrantes 6
0 votes
1 reply
678 views
Quality control metrics in mmCIF
pdb protein mmcif
updated by dthorbur 350 • | written by Adrian 0
0 votes
3 replies
1.0K views
phage sequence no alignment to genome
prophage bwa phage genome alignment
updated by GenoMax 16K • | written by Luwell 0
0 votes
1 reply
947 views
Mitochondrial Annotation Tool
illumina bovine mitochondria
updated by patrickdm 26 • | written by adarsh 8
0 votes
1 reply
697 views
Assessing the difference between a de novo assembly and a reference genome
hifiasm mummmer dnadiff
updated by patrickdm 26 • | written by andrea 0
0 votes
1 reply
1.3K views
HISAT2 or STAR
alignment hisat2 star
updated by rfran010 174 • | written by SpliceAndScript 0
0 votes
2 replies
961 views
What to do after fastp?
rna-seq fastp alignment
updated by dthorbur 350 • | written by SpliceAndScript 0
0 votes
1 reply
960 views
SNP calling from multiple genomes: No valid SNPs
samtools bcftools snp plink wgs
updated by colindaven 844 • | written by emil.paulitz 0
0 votes
0 replies
927 views
ATAC-seq analysis
atac-seq hmmratac calling peak macs3
updated by GenoMax 16K • | written by sk_24 2
0 votes
1 reply
759 views
Bioconductor scRNAseq tutorial constantly breaks down due to dependencies
r bioconductor scrnaseq rnaseq
updated by GenoMax 16K • | written by bn 3
0 votes
1 reply
824 views
Trouble building combined pangenome graph with circularized genomes + embedded ORF1 paths
vg
updated by Jordan M Eizenga 78 • | written by Floren 0
0 votes
2 replies
1.6K views
HOMER findMotifsGenome.pl failed compilation
findmotifsgenome.pl motifanalysis homer
updated by 于 0 • | written by India 0
0 votes
0 replies
778 views
News: Introduction to Genome-Wide Association Studies (GWAS) | 23-27 June
statisticalpower gwas imputation
written by Physalia-courses 281
0 votes
4 replies
2.7K views
normalize between 2 different platform
rna-seq
updated by linqy 1 • | written by Edalat 5
1 vote
0 replies
526 views
How to normalize bulk TCR-seq data generated by different methods and platforms
tcr
updated by Ram 4.5K • | written by linqy 1
0 votes
1 reply
826 views
Building database with snpEff -- -gtf22 option not recognized/file not read
snpeff
updated by GenoMax 16K • | written by michael.dhar 0
0 votes
4 replies
2.2K views
Discussions about QC of sc-multiomic-ATAC_RNA-seq from 10xgenomics platform in terms of using repetitive elements to filter peaks
sequence scatac cell single 10xatac
written by gynecoloji 0
0 votes
2 replies
1.0K views
Using VEP custom input
gnomad constraint loeuf vep pli
written by Sd 0
0 votes
0 replies
639 views
Bacterial transcriptome analysis- any need for --dta in HISAT2?
dta stringtie transcriptome bacterial hisat2
written by a58c4637 0
1 vote
5 replies
3.1K views
nanopore unaligned bam files
nanopore
updated by colindaven 844 • | written by sarahmanderni 13
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