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121,992 results • Page 653 of 2440
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0
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4
replies
1.2k
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How to print coordinates in continuous manner
outfmt blast
4.4 years ago by K ▴ 10
0
votes
8
replies
2.1k
views
How to compare data in two files and print matching data of file1 and file2
Genome Match SNPs
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 170
38
votes
18
replies
17k
views
9 follow
How to identify 16s sequences from binning data(contigs)?
genome Assembly sequence blast
updated 6 months ago by 20k • written 10.0 years ago by ▴ 110
0
votes
5
replies
1.3k
views
Print rows where the columns have a specific condition
awk linux bash
updated 4.4 years ago by 21k • written 4.4 years ago by ▴ 10
0
votes
3
replies
1.8k
views
Mitochondrial sequence data analysis
Sequencing RNA
4.4 years ago by bandanaschapagain ▴ 40
1
vote
3
replies
1.4k
views
Issue with Trimmomatic "Unknown Trimmer"
Illumina Trimmomatic Transcriptomics
updated 4.4 years ago by 154k • written 4.4 years ago by • 0
0
votes
0
replies
971
views
Job: Informatician / Data Analyst | University of Glasgow
scotland data-analyst
updated 2.3 years ago by 45k • written 4.4 years ago by 15k
1
vote
0
replies
1.4k
views
I use SingleR to get cell type annotation for each cell, then try to annotate each cluster, but the clustering result seems not to be consistent with…
SingleR scRNAseq
4.4 years ago by FantasticAI ▴ 60
1
vote
2
replies
6.4k
views
fastq.gz unexpected end of file: Can this be fixed?
corrup fastq
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 60
3
votes
5
replies
14k
views
pheatmap: how to avoid fontface, fontsize, and color from writing over existing rownames
fontsize rows color R pheatmap
updated 4.4 years ago by 21k • written 4.4 years ago by ▴ 60
1
vote
4
replies
2.9k
views
How to calculate differential methylation from nanopore reads?
sequencing methylation
4.4 years ago by O.rka ▴ 750
0
votes
0
replies
575
views
Looking for an Amino Acid Level Variant Caller
Amino-Acid Fastq VCF Variant-Calling
updated 24 months ago by 45k • written 4.4 years ago by • 0
1
vote
3
replies
3.1k
views
Size factor between bcl and fastq
bcl NGS Illumina Fastq
updated 4.4 years ago by 3.4k • written 4.4 years ago by ▴ 290
5
votes
7
replies
4.2k
views
deeptools 3.5 Segmentation fault:11
NGS deepTools ChIP Illumina
updated 4.4 years ago by 105k • written 4.4 years ago by ▴ 20
0
votes
1
reply
1.6k
views
ENSEMBL VEP custom annotation with GFF file
variant vep annotation custom
updated 4.4 years ago by 24k • written 4.4 years ago by • 0
0
votes
2
replies
1.5k
views
Integrating two Seurat multimodal objects
scRNA-seq Seurat R 10X
4.4 years ago by roberts ▴ 60
3
votes
3
replies
5.7k
views
TPM to differential expression
RNA-seq
updated 4.4 years ago by 13k • written 4.4 years ago by • 0
2
votes
2
replies
1.6k
views
tools for calculating nucleotide composition of a gene
NGS
4.4 years ago by xiaoleiusc ▴ 140
1
vote
4
replies
1.7k
views
Mutation hunting in 100 exome samples
vcf R mutations
updated 4.4 years ago by 5.9k • written 4.4 years ago by ▴ 30
0
votes
1
reply
945
views
Estimating error rate across my 16S MiSeq amplicon sequencing
sequencing amplicon MiSeq error
updated 4.4 years ago by 3.9k • written 4.4 years ago by ▴ 110
1
vote
2
replies
3.4k
views
10x genomics single cell RNA-Seq data submission to GEO
GEO to scRNA-Seq data submission
4.4 years ago by Nitin Narwade ★ 1.7k
0
votes
2
replies
1.3k
views
how to identify haplotypes and its frequency based SNP genotyping data?
haplotypeestimation snphaplotypes haplotype
updated 4.4 years ago by 89k • written 4.4 years ago by ▴ 70
0
votes
2
replies
2.5k
views
Quantile normalization error: vector types do not match in copyVector
R
updated 4.4 years ago by 45k • written 4.4 years ago by • 0
2
votes
4
replies
2.0k
views
Looking for both RNA-Seq and Single Cell RNA-Seq data collected from the the same individuals
scRNA-seq RNASeq
4.4 years ago by ali_karimnezhad ▴ 20
1
vote
4
replies
1.5k
views
NCBI reported coverage from long and short reads
pacbio ncbi genome illumina
2.8 years ago by Morgan S. ▴ 90
0
votes
1
reply
728
views
Microbial Genome Comparison with human genome
Microbiome Genomics Comparison Genes DNA
4.4 years ago by adarsh ▴ 60
0
votes
1
reply
904
views
SmallRNA Seq Analysis on CHIMIRA
web smarna CHIMIRA
updated 2.3 years ago by 45k • written 4.4 years ago by ▴ 50
7
votes
2
replies
2.6k
views
Batch effects from sequencing samples accross multiple flow cells.
rna-seq batch batch-effect sequencing
updated 18 months ago by 45k • written 4.4 years ago by ▴ 80
1
vote
5
replies
1.4k
views
grep sequence
grep
updated 4.4 years ago by 45k • written 4.4 years ago by ▴ 140
0
votes
0
replies
840
views
Job: Postdoc in computational metabolism @ Karolinska Institutet, Stockholm
mass-spectrometry metabolomics networks algorithms
4.4 years ago by roland.nilsson • 0
3
votes
4
replies
1.4k
views
Combine full-length and 3` RNAseq, is it possible?
ExperimentalDesign RNAseq
3.6 years ago by garcesj ▴ 50
1
vote
1
reply
1.1k
views
Warning message: 'channel' automatically added to varMetadata in phenoData.
r microarray oligo celfiles
updated 4.4 years ago by ▴ 70 • written 4.4 years ago by ▴ 20
1
vote
4
replies
1.5k
views
Samtools path
CNVs NGS sequencing samtools
updated 2.3 years ago by 154k • written 4.4 years ago by ▴ 20
0
votes
0
replies
1.2k
views
Creating a VCF file with A and B allele
VCF plink allele
4.4 years ago by PKW ▴ 110
1
vote
4
replies
2.7k
views
Error in CNV Calling with Annotation
cnvkit
updated 4.4 years ago by 45k • written 6.6 years ago by ▴ 10
6
votes
5
replies
1.8k
views
can not understand algorithms
algorithms
4.4 years ago by BenHu • 0
0
votes
1
reply
1.1k
views
how to find a threshold p value for eqtl analysis
matrixeqtl
updated 4.4 years ago by ★ 1.3k • written 4.4 years ago by • 0
0
votes
2
replies
1.1k
views
Which data recommends remaining or removing for backups of NGS (WES or WGS)?
BAM BACKUP FASTQ WES REMOVE
4.4 years ago by Eleanor K Callies • 0
0
votes
5
replies
1.7k
views
STAR alignment issue
STAR RNAseq
updated 4.4 years ago by ★ 2.4k • written 4.4 years ago by • 0
0
votes
0
replies
2.6k
views
Assigngin dbsnp RSIDs to Plink .bim files using chr:pos data
vcf annotation rsid dbsnp Plink
4.4 years ago by Hamish ▴ 40
0
votes
5
replies
2.0k
views
DAVID enrichment analysis
DAVID rnaseq
updated 4.4 years ago by ★ 1.7k • written 4.4 years ago by ▴ 20
0
votes
3
replies
1.2k
views
mutation analysis, tcga
genome
updated 4.4 years ago by ★ 1.3k • written 4.6 years ago by ▴ 180
4
votes
6
replies
3.0k
views
What does it mean of de.genes in SingleR output? What is the difference between the genes in de.genes and genes in findMarkers?
SingleR scRNAseq
4.4 years ago by FantasticAI ▴ 60
0
votes
2
replies
1.2k
views
Bowtie2 index
seq RNA
4.4 years ago by aranyak111 • 0
1
vote
14
replies
4.1k
views
Comparing two variant files
variant comparison
updated 4.4 years ago by ▴ 730 • written 4.4 years ago by ▴ 120
1
vote
5
replies
3.3k
views
Concatenating gmt files from msigdb
ssGSEA RNAseq Pathway KEGG REACTOME
updated 4.4 years ago by 89k • written 4.4 years ago by ▴ 390
0
votes
0
replies
524
views
Genome Dataset (include nucleotide string)
alignment SRA software fast data
4.4 years ago by ysnerdgn_38 • 0
3
votes
7
replies
2.3k
views
BLASTX script doesn't print results and never ends
blastx command-line
updated 4.4 years ago by 45k • written 4.4 years ago by ▴ 70
0
votes
0
replies
756
views
Training a layered HMM
Baum-welch EM HMM
4.4 years ago by trinityduke100 ▴ 10
0
votes
5
replies
1.5k
views
graph boxplot error
R codon boxplot ggplot2
updated 4.4 years ago by 21k • written 4.4 years ago by • 0
121,992 results • Page 653 of 2440
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A: Trimmomatic Error: Unable to detect quality encoding
A: Trimmomatic Error: Unable to detect quality encoding
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: TMM-Normalization
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Recent Replies
Answer: Pseudogene - scarce info by Mensur Dlakic ★ 30k
> The gene plays a pivotal role in some pathways of the immune response, but tbh I could'nt find any mention of my pseudogene on the linked…
Answer: SNP calling ONT sequenced files by cfos4698 ★ 1.2k
My personal preference is using [clair3][1]. I'm unsure if CLC didn't work because your compute resources are too limited, or if there are …
Comment: HIV NL4-3 transcriptome fasta by Ales ▴ 50
Hi, Wanted to update here that full transcriptome annotations for thousands of hiv genomes (including NL4-3) are now available at https://…
Answer: HIV NL4-3 transcriptome fasta by Ales ▴ 50
You can get full transcriptome annotation for the NL4-3 genomes: https://ccb.jhu.edu/HIV_Atlas/11676/AF324493.2 . Note the accession ID tho…
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I think you are wrongly assuming that we can help you with this without knowing what is the protein of interest. A general answer is that …
Answer: Difficulty running FoldX in linux by Mensur Dlakic ★ 30k
The post looks much better now, so you did something. The preview here works fine. It simply can't be that the preview for your original po…
Comment: GUI commercial software for 10x single cell gene expression analysis by GenoMax 154k
Black box software has its cons but in instances like what OP needs that may be the only viable option. Their use limits reproducibility as…
Comment: downloading raw bam files from pacbio sequencer by GenoMax 154k
Have you checked : https://www.pacb.com/connect/datasets/
Comment: TMM-Normalization by kalavattam ▴ 380
No, but a modified version of TMM does: “GeTMM.” See the paper [here](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-0…
Comment: Difficulty running FoldX in linux by strayeroliver • 0
Responding to your answer. - I spent a lot of time formatting it just right, using the ``` methodology you mentioned. It looks very good o…
Comment: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions by Phil Ewels ★ 1.5k
Found the docs: https://www.nextflow.io/docs/latest/process.html#multiple-input-files | Arity | Name pattern | Staged file names | |---|--…
Comment: Dorado in PowerShell on Windows by jared.andrews07 ★ 19k
No more than running it on native Linux (as that's what WSL is at this point).
Answer: SNP calling ONT sequenced files by colindaven 8.0k
The quality of (modern, SUP basecalled, but certainly not fast basecalled) ONT sequences should be fine, especially for bacterial SNP call…
Comment: SNP calling ONT sequenced files by GenoMax 154k
What is the median length of raw reads and how many do you have? Has the data been basecalled with "high" or "super" accuracy? > I have …
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere by GenoMax 154k
This question is about simulating reads and not read mapping.
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