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1 vote
4 replies
2.7K views
Snakemake: how to define output from a dictionary according to wildcard
wildcards snakemake dictionary
written by ema 1
0 votes
2 replies
1.4K views
Elastic BLAST vs. BLAST cloud
blast
updated by Yannick Wurm 252 • | written by Joseph Kashmer 0
0 votes
2 replies
1.4K views
Alphafold2 Colab
alphafold
updated by dthorbur 350 • | written by Preeti 0
0 votes
2 replies
2.6K views
Want to uninstall apache ant, can't find the install
ubuntu apache ant
written by Matthew 0
0 votes
4 replies
1.7K views
How to download Accession List from NCBI on CLI?
cli ncbi python
updated by GenoMax 16K • | written by Cam 0
0 votes
2 replies
1.5K views
Job: Junior Research Software Engineer/ Research Software Engineer - web resources for virology
software developer web virology
written by Joseph Hughes 301
0 votes
0 replies
572 views
help a general guideline of bioinformatics strategy to analize gut metagenome virome data from stool samples
gut-virome
updated by Ram 4.5K • | written by Israel 0
0 votes
3 replies
1.4K views
Genes with multiple chromosome locations
gene annotation loci alternative
updated by Alex Reynolds 3.6K • | written by Pac314 1
0 votes
2 replies
1.2K views
WGCNA, correlation with trait data from different individuals
wgcna
written by boczniak767 89
0 votes
2 replies
1.3K views
Forum: What's the state of the art in bacterial whole genome alignment?
whole genome alignment mauve
written by Dave Carlson 223
0 votes
1 reply
883 views
Where to find a GTF, GFF, or SAF for RheMac2 genome
annotations
updated by GenoMax 16K • | written by Sillyman 0
0 votes
1 reply
1.1K views
Huge TPM values in some tissues of an expression atlas
gene expression
updated by jared.andrews07 1.9K • | written by lessismore 144
0 votes
1 reply
1.3K views
How is strandedness preserved with PCR (DNA/RNA-seq)
pcr strandedness sequencing
updated by Carlo Yague 906 • | written by Sotiris 0
0 votes
0 replies
539 views
Isolate somatic variants from VCF files coming from cell-free DNA
ngs analysis vcf somaticvariants germlinevriants
written by eleni.psar 0
1 vote
2 replies
1.1K views
Seeking Guidance on How to Annotate Unusual Cell Populations in Single-Cell Data
transcriptomics single-cell
updated by Ram 4.5K • | written by Daddy 2
0 votes
13 replies
8.7K views
How to convert raw Nanopore R9 fast5 files to fastq files ?
dorado fast5 basecalling nanopore
updated by lieven.sterck 1.6K • | written by Lélé 1
0 votes
4 replies
1.5K views
Rna editing
annotation transcriptome rna-seq
written by RUBEM 0
0 votes
0 replies
897 views
Job: PhD offer metabarcoding plant insect interaction in agricultural fields in Germany
metabarcoding enthomology botany
written by b.gemeinholzer 0
0 votes
6 replies
2.0K views
Selection of GTF file from gencode
star
updated by GenoMax 16K • | written by Nodilan 1
0 votes
3 replies
1.2K views
GnomAD
gnomad
written by ananta.kapoor 0
13 votes
39 replies
50K views
Illumina Instrument Type from fastq?
fastq
updated by Randy H 11 • | written by andrew.j.skelton73 667
1 vote
3 replies
1.2K views
Integrate Chipseq and Atacseq data?
atac-seq chip-seq
written by RD 3
0 votes
0 replies
907 views
Guidance Needed: Matching Cancer-Specific Alterations with ATAC-seq Genomic Coordinates
alignment atac-seq cancer
written by davoudamirimehr 0
1 vote
1 reply
3.7K views
TopMed freeze8 reference panel download
reference panel topmed imputation genotype
updated by fukun 0 • | written by dtzhu337 1
0 votes
1 reply
970 views
Codon Usage Analysis
codon
updated by zx8754 1.2K • | written by jl056933 0
0 votes
4 replies
2.2K views
sortmerna not counting the EOF REV file, not working on paired end reads
sortmerna cutadapt
updated by GenoMax 16K • | written by jway 0
0 votes
1 reply
936 views
building large dataset transcriptome
de-novo transcriptome
updated by GenoMax 16K • | written by Raygozak 143
0 votes
0 replies
921 views
DRACH motif enrichment analysis from RNA-seq DEGs
rna-seq motif homer
written by Luca 3
0 votes
1 reply
1.1K views
Resolution of ambiguous calls in germline vcf
vcfs germline qc
updated by Jeremy Leipzig 2.3K • | written by Raygozak 143
0 votes
5 replies
1.9K views
CollectVariantCallingMetrics Error
collectvariantcallingmetrics gatk gvcf
written by Sd 0
0 votes
0 replies
948 views
Error in validObject(.Object) : invalid class “ExpressionSet” object: sampleNames differ between assayData and phenoData
gsva
written by Chris 36
0 votes
0 replies
694 views
Correct genome version for ncbi37
ensembl biomart
written by ramiro.barrantes 6
0 votes
0 replies
992 views
News: The 2024 Canadian Bioinformatics Workshops are here!
cbw workshop training
written by bioinformatics.ca 0
0 votes
2 replies
1.1K views
Error from cgat gtf2gtf --method=genes-to-unique-chunks
rna-seq gtf cgat
written by PK 13
0 votes
2 replies
1.5K views
Choosing right GSEA background gene sets
gsea enrichment analysis
updated by jv 187 • | written by yxwucq 0
0 votes
1 reply
1.1K views
Bioinformatic tools to map mutations to pathways
pathway-analysis
updated by Ram 4.5K • | written by eleni.psar 0
0 votes
1 reply
1.1K views
Best Freebayes parameter for haploid variant detection
freebayes detection variant
updated by LauferVA 497 • | written by A_heath 18
0 votes
12 replies
6.5K views
samtools mpileup keeps making an empty file
samtools pileup
updated by anonym101 12 • | written by James Reeve 13
2 votes
6 replies
2.5K views
somatic variant calling without matched normal in long-reads
variants cancer illumina ont nanopore
written by eebloom 11
0 votes
3 replies
1.3K views
Protocol to combine WGS with Nanopore for Structural Variant confirmation?
wgs
updated by trausch 202 • | written by optimistsso4co3 14
1 vote
3 replies
2.0K views
Whole-genome alignment visualization
cactus maf bigmaf
updated by SanjidaR_NCBI 7 • | written by gubrins 35
0 votes
9 replies
3.4K views
Porechop output?
porechop nanopore
updated by GenoMax 16K • | written by giulia.trauzzi 3
0 votes
2 replies
2.1K views
Downsampling of cells in scRNAseq DE analysis
differential-expression de scrnaseq
updated by Ram 4.5K • | written by mytp 0
0 votes
0 replies
554 views
Which fasta file for Variant Calling using RNASeq
rna-seq variant-calling
updated by Ram 4.5K • | written by andrebolerbarros 0
0 votes
1 reply
727 views
Do I have enough reads for virome analyis?
metagenomics hiseq virome statistics reads
updated by Bruntland Aldre 2 • | written by Mageiros 0
0 votes
0 replies
530 views
Outputs from FarmCPU (rMPV package)
r farmcpu gwas
written by Noctiluca 0
0 votes
4 replies
1.9K views
DESeq2 for two sample conditions
deseq2
updated by Michael Dondrup 5.6K • | written by Aaliya 0
0 votes
1 reply
863 views
DESEQ2 Code
ngs
updated by ATpoint 9.1K • | written by ananta.kapoor 0
0 votes
2 replies
1.4K views
How to parallelize running vg autoindex to create graph references from VCFs with vg?
vg
written by Ricky 1
1 vote
5 replies
5.6K views
WGCNA HeatMap correlating modules and sample conditions
rnaseq heatmap wgcna conditions clustering
updated by GenoMax 16K • | written by Raito92 10
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