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0 votes
0 replies
541 views
Questions regarding Boundary Conditions for Adaptive Sequencing for Oxford Nanopore
adaptive sampling nanopore oxford sequencing
written by LauferVA 497
0 votes
2 replies
1.4K views
Problem merging plink files for somatic variants.
plink somatic vcf
written by Palgrave 14
0 votes
8 replies
1.8K views
i'm trying to use STAR and there is a problem...
star
updated by GenoMax 16K • | written by markusz 1
0 votes
2 replies
1.7K views
Warning: Expected at least 2 parts in FORMAT entry: ID=GP,Number=3,Type=Float,Description="Estimated Posterior Probabilities for Genotypes 0/0, 0/1 and 1/1">
vcftools
updated by Pierre Lindenbaum 17K • | written by juan.sainz 0
0 votes
0 replies
645 views
Gene Prediction Breaker3
prediction protein-seq gtf breaker3 gene
written by mathavanbioinfo 8
1 vote
2 replies
1.4K views
Forum: Exploring Amino Acid Patterns in Proteins Through N-gram Analysis
protein cafa5
written by Anatoly A. 1
0 votes
2 replies
1.1K views
How to save the output of VARSCAN results in different vcf names?
snv slurm output varscan
written by kabir.deb 9
0 votes
5 replies
1.6K views
Is there a reason why fastq files from SRAExplorer and SRAToolkit are different sizes?
sraexplorer sratoolkit
updated by GenoMax 16K • | written by biotrekker 11
0 votes
7 replies
2.4K views
Getting fasta file from the VCF after variant calling
fastq pangolin assembly
updated by Michael Dondrup 5.6K • | written by Neil 2
0 votes
1 reply
927 views
convert and merge somatic vcf file to plink format
gwas plink vcf
updated by LChart 518 • | written by Palgrave 14
0 votes
1 reply
915 views
Get read counts without GTF/GFF files
rna-seq
updated by GenoMax 16K • | written by weather 0
1 vote
0 replies
526 views
Using TidyEstimate scores in the Design Matrix of DESeq2
estimate deseq2 tidyestimate rnaseq
written by Abhishek 1
0 votes
6 replies
1.7K views
why the file is low after combining the Hi-C reads using Arima genomics pipeline of mapping
bwa mapping genome samtools plants
written by rj.rezwan 2
0 votes
0 replies
716 views
DESeq stats or Wilcoxon auc scores as input in pathway analysis
pathway-analysis
updated by Ram 4.5K • | written by leranwangcs 15
0 votes
0 replies
807 views
Experience with copykat
copykat
written by Nona 9
0 votes
1 reply
1.0K views
Analyzing scRNA seq data and want to analyze it's DEG with DESeq2
scrna-seq deg deseq2
written by kayah 2
1 vote
4 replies
1.3K views
What should be used as a "baseline" in pooled CRISPR screen?
crispr mageck facs
written by Aleksandr 1
0 votes
12 replies
3.4K views
bbmap read length from fastq
fastq bbmap
updated by GenoMax 16K • | written by marco.barr 22
0 votes
1 reply
1.0K views
how to add non-reference genes to BED file of intervals for PHG
pangenome plants phg
updated by lcj34 42 • | written by b.contreras.moreira 49
0 votes
2 replies
995 views
GFF reformator
gff
updated by GenoMax 16K • | written by HERMAN 1
0 votes
0 replies
644 views
featureCounts micounts reads?
rna-seq gtf introns featurecounts
written by tessa2525 0
0 votes
1 reply
1.1K views
Having problems doing the Hisat2 alignment
hisat2
updated by ATpoint 9.1K • | written by 2385676601 0
2 votes
3 replies
1.6K views
Inflation in Imputed data
genomic immunochip inflation topmed
updated by Amy 2 • | written by desicasares 4
0 votes
0 replies
534 views
Tools for eQTL and somatic mutation analysis of RNA-seq data
eqtl somatic-mutations rna-seq
updated by Ram 4.5K • | written by malonzm1 2
0 votes
3 replies
2.4K views
SHAPEIT5 phasing
shapeit vcf shapeit5
written by Michal Frenkel 3
0 votes
1 reply
1.1K views
Running Pangolin
pangolin splicing
updated by Ram 4.5K • | written by Sruthi 0
0 votes
2 replies
1.5K views
Re. Batch effect correction in data with a design matrix without full rank
deseq2 batch multi-factor
updated by swbarnes2 1.5K • | written by JB 0
0 votes
7 replies
2.3K views
RNA Seq Sample Outlier
mds rna-seq
updated by ATpoint 9.1K • | written by Emilie 1
0 votes
3 replies
3.2K views
ANGeS - Ancestral Genome reconstruction
ancestral genome
updated by illodukarthickbabu 0 • | written by alslonik 32
0 votes
13 replies
3.2K views
Help with the new nomenclature of multi-nucleotide variants
bam igv multinucleotide
written by hello_bioinf 25
0 votes
5 replies
2.0K views
index fasta file for HaplotypeCaller
samtools haplotypecaller gatk faidx
written by Mojtaba 0
0 votes
7 replies
1.8K views
single nuclei sequencing questions
fastq single-nuclei-sequencing
updated by Ram 4.5K • | written by Long 1
1 vote
1 reply
1.1K views
DESeq and SVA for batch effect
sva limma batch-effect deseq2
updated by LChart 518 • | written by michelafrancesconi9 3
0 votes
4 replies
1.5K views
How to merge VCF files from multiple samples and remove individual level information
vcf
written by Arton 2
0 votes
3 replies
1.4K views
How to download all expressed sequence tags (ESTs) for particular species from NCBI using command ?
ncbi est
updated by GenoMax 16K • | written by Sony Nguyen 2
0 votes
1 reply
994 views
How is it possible to differentiate CG or AT heterozygous in Illumina Infinium Genotype Microarrays?
heterozygous genotype microarray infinium illumina
updated by LChart 518 • | written by igor.alcaras 0
0 votes
0 replies
785 views
Adding shapes from plotly R library to the phylogenetic tree tips generated by ggtree
r phylogenetic-tree ggtree plotly
updated by Ram 4.5K • | written by Hann 13
0 votes
7 replies
2.2K views
Need a link to OLDERADO server
pdb protein nmr structure
written by b2003 0
0 votes
1 reply
1.5K views
Filtering VCF files with bcftools
vcf vcftools bcftools
updated by 4galaxy77 288 • | written by eleni.psar 0
4 votes
2 replies
3.3K views
Tool: Coovar: Co-Occurring Variant Analyzer
snp variant-annotation
updated by GenoMax 16K • | written by Christian 307
0 votes
0 replies
523 views
Error in MetaPro pipeline at contig assembly
metatranscriptomics
updated by Ram 4.5K • | written by styagi 0
0 votes
5 replies
2.0K views
Weird Fragment Length distribution multiQC
salmon rna-seq paired-end multiqc
updated by GenoMax 16K • | written by _deb 0
0 votes
6 replies
1.6K views
single cell RNA seq integration(Error in UseMethod(generic = "as.sparse", object = x))
scrna-seq
written by kayah 2
0 votes
2 replies
1.8K views
no permission to install to directory
r
updated by Ram 4.5K • | written by sooni 2
0 votes
5 replies
1.5K views
Issues with bcftools
bcftools
updated by Pierre Lindenbaum 17K • | written by hgrsce 0
0 votes
5 replies
1.9K views
Issues filtering VCF file with bcftools/vcftools
vcftools vcf bcftools
updated by Pierre Lindenbaum 17K • | written by ekirsch 0
0 votes
9 replies
3.3K views
blast retrieves "N/A" for taxonomic data
blast blastn
updated by flavianegrete 0 • | written by langziv 8
0 votes
4 replies
1.8K views
Why many organisms even though they possess mitochondrial DNA (mtDNA), it is not typically represented by chromosomes labeled as "mtDNA"?
genome mtdna reference-genome sequence
written by George X. 0
0 votes
6 replies
1.6K views
RNA indexing using STAR error
rna-seq star
updated by Ram 4.5K • | written by Shay 0
0 votes
2 replies
1.1K views
How to extract mutations in a particular gene from the VCF file of whole genome
ngs mutations vcf
written by saamar.rajput 8
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