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1 vote
2 replies
1.7K views
Forum: The best LLM or any tool to generate legal regex expression string for specific usage?
regex awk sed commands linux
updated by GenoMax GenoMax • written by JustinZhang • JustinZhang
0 votes
6 replies
4.1K views
minimap2 gets killed, but it doesn't explain why
minimap2
updated by Arup Ghosh Arup Ghosh • written by michael.flower.14 • michael.flower.14
0 votes
1 reply
1.0K views
Reference-guided transcriptome assembly using multiple SRA experiments ?
assembly transcriptome projects sra
updated by lieven.sterck lieven.sterck • written by debitboro debitboro
0 votes
10 replies
4.7K views
Minimap2 error in Flye de novo assembly
flye minimap2
written by Nilo • Nilo
0 votes
0 replies
680 views
How to find hormone related proteins from a list of gene/proteins
r
updated by Ram Ram • written by WUSCHEL WUSCHEL
0 votes
0 replies
680 views
mtDNA variants from WGS data
mitogenome wgs
updated by Ram Ram • written by wonde2000 • wonde2000
0 votes
1 reply
870 views
Merge 1000 Genome gentotype AND genotype likelihood VCFs together
vcf liftovervcf merge
updated by Giulio Genovese • Giulio Genovese • written by JourneyToAbyss JourneyToAbyss
0 votes
0 replies
759 views
Writing genepop from genind
r genepop genind graph4lg stacks
written by eaabbott0 • eaabbott0
0 votes
4 replies
3.2K views
Remove all entries with duplicate names from fastq file?
fastq illumina duplicate
updated by Charles-Alexandre Roy • Charles-Alexandre Roy • written by wormball • wormball
1 vote
1 reply
814 views
Copy Number Variants with CNVKit
cvns somatic_variant recommendations cnvkit
updated by GenoMax GenoMax • written by AIMAR • AIMAR
0 votes
0 replies
679 views
Basecount calculation after alignment to multi-fasta file
multi-fasta sequence bwa consensus samtool alignment
written by aj • aj
0 votes
0 replies
536 views
TEtranscripts analysis
tetranscripts
written by frarodmar17 • frarodmar17
0 votes
0 replies
593 views
CVNkit call commande
cvns cnvkit somatic_variant
written by AIMAR • AIMAR
0 votes
6 replies
1.8K views
FraserDataSet() error in FRASER
r splicing fraser rnaseq alternative
written by n_navy • n_navy
0 votes
1 reply
806 views
Strange volcano - DEGs with p.adj=0 look weird
rna-seq degs
updated by manaswwm manaswwm • written by noodlejackson • noodlejackson
1 vote
3 replies
1.3K views
What is the difference between JASPAR IDs MA0668.3 and MA1993.2 for Neurod2?
motifs atac-seq factor jaspar transcription
updated by GenoMax GenoMax • written by Ambuj • Ambuj
0 votes
0 replies
706 views
News: Online course: Introduction to R and Bioconductor
r bioconductor genomics
written by Physalia-courses Physalia-courses
0 votes
0 replies
442 views
IM-fusion data analysis
im-fusion
written by frarodmar17 • frarodmar17
0 votes
4 replies
973 views
error in reading codelink data
readcodelinkset
written by nazaninhoseinkhan nazaninhoseinkhan
0 votes
1 reply
1.0K views
DiffBind analysis with ENCODE data using R and .bed/.bam files
r chip-seq encode diffbind
updated by Aspire Aspire • written by stalo.lili • stalo.lili
1 vote
5 replies
2.0K views
No variant in the Pseudoautosomal regions of gomad chrY ?
chry par vcf gnomad pseudoautosomal
updated by cmdcolin cmdcolin • written by Pierre Lindenbaum Pierre Lindenbaum
6 votes
6 replies
4.3K views
News: Boston Ma Us Area Folks: Software Carpentry Workshop For Women In Science Coming Up
python training
updated by GenoMax GenoMax • written by Mary Mary
0 votes
1 reply
1.0K views
Selecting clinical rows for repeated case IDs in TCGA-BRCA data
clinical-data breast-cancer tcga
updated by Zhenyu Zhang Zhenyu Zhang • written by BhagyashreeWaghale • BhagyashreeWaghale
0 votes
2 replies
1.2K views
Kallisto to tximport to deseq2
enseml deseq2 kallisto
updated by GenoMax GenoMax • written by bioinfo • bioinfo
0 votes
0 replies
721 views
Tool for Estimation of Purity and Ploidy in Precancerous Lesions
cnv purity genome ploidy
written by ting • ting
1 vote
8 replies
2.5K views
Nextflow: split a FASTA file into 5 parts to enable parallel processing
nextflow workflow pipeline
written by neng • neng
0 votes
1 reply
963 views
What to choose as background in statistic test genetics
test expression gene statistic
updated by Dunois • Dunois • written by adigershon8897 • adigershon8897
0 votes
4 replies
1.6K views
differential exon usage from Salmon outputs
edger diffsplicedge deu salmon
updated by Gordon Smyth Gordon Smyth • written by n_navy • n_navy
0 votes
0 replies
976 views
Multi-SNP Behavioral and Frequency Profile Inquiry: TPH2, GRM2, COMT, DRD2, HTR1A (Rare Interaction)
population-genetics genetic-variation epistasis snp gnomad
written by SonicSoal • SonicSoal
0 votes
0 replies
652 views
News: Online course -Reproducibility in Bioinformatics - July 7–9
singularity git docker snakemake nextflow
written by Physalia-courses Physalia-courses
0 votes
5 replies
1.4K views
RNA-Sequencing Analysis when control samples paired-end and tumour samples single-end
ena rna-sequencing
written by h • h
0 votes
3 replies
1.1K views
STAR aligner - how is quality and correctness tested across builds/releases?
star
updated by GenoMax GenoMax • written by Arthur • Arthur
0 votes
2 replies
1.0K views
Pathway enrichment analysis on time-series data by filtering out age comparisons
pea go rnaseq time-series
written by fullycratered • fullycratered
0 votes
10 replies
2.4K views
building snpeff database for plant
plant
updated by lieven.sterck lieven.sterck • written by Bushra Bibi Bushra Bibi
0 votes
1 reply
806 views
How to find motif in specific region
motif chip-seq
updated by Alex Reynolds Alex Reynolds • written by zhang616123 • zhang616123
0 votes
0 replies
714 views
How to interpret perplexing qcovhsp result in blastx
blastx qcovhsp blastn
written by samuel.himes • samuel.himes
0 votes
0 replies
684 views
Representation of GT:DS INFO tag for a missing marker in a VCF file
vcf bcftools
written by Mwangana • Mwangana
0 votes
0 replies
802 views
Best Practices for Integrating RNA-seq Time Series from Multiple Studies with Varying Protocols
differential-expression meta-analysis integration rna-seq time-series
written by enee • enee
1 vote
9 replies
6.7K views
bcftools query add header
bcftools
updated by GenoMax GenoMax • written by User000 User000
0 votes
2 replies
1.0K views
Alternative to PASApipeline
transcriptomics annotation
updated by colindaven colindaven • written by lagartija lagartija
0 votes
0 replies
498 views
How to Get a Genetic Map, Given the Physical Position and Genotype Data of Markers
genetic-map
updated by Ram Ram • written by Daniyal • Daniyal
0 votes
7 replies
4.0K views
vcftools --weir-fst-pop returns -nan
fst vcftools
updated by Michael Dondrup Michael Dondrup • written by elizabeth • elizabeth
0 votes
3 replies
1.1K views
HISAT2 with Cleaned Data
hisat2 rnaseq
updated by lieven.sterck lieven.sterck • written by Gordonz9494 • Gordonz9494
0 votes
1 reply
1.1K views
Definitions for "differential expression" and "differential abundance" in RNA-seq?
rna-seq deseq abundance differential-expression
updated by Ram Ram • written by tw_140 • tw_140
0 votes
5 replies
1.4K views
Efficiently find regions in bed file that are within start and end regions of another bed file.
intersect bedtools
updated by Alex Reynolds Alex Reynolds • written by rxs1018 • rxs1018
0 votes
4 replies
1.1K views
16S Libraries With Non-Purified Short Fragments
sequencing 16s libraries magnetic beads
written by alenew.am • alenew.am
0 votes
1 reply
933 views
How to map polyA tails to barcodes in paired end reads for single cell RNA-seq
rna-seq cell polya single
updated by GenoMax GenoMax • written by Ana • Ana
1 vote
6 replies
6.5K views
Questions related to ChromHMM+using MACS2 peak calling output bed file as input for ChromHMM?
macs2 chip-seq chromhmm macs2 chromhmm
updated by luminea • luminea • written by m.sadman.sakib m.sadman.sakib
1 vote
5 replies
2.1K views
Editing and Adding to a GTF file
annotation gene-id gtf
updated by Ram Ram • written by Keem Uarren Eiryll • Keem Uarren Eiryll
0 votes
2 replies
1.1K views
Averaging multiple IgG BAM files for use as a control in ChromHMM
chromhmm bam averag
updated by ATpoint ATpoint • written by luminea • luminea
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