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122,022 results • Page 588 of 2441
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1
vote
12
replies
3.4k
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deeptools how to choose a bodylength
Genome ChIP-Seq NGS DNA
4.1 years ago by luckysardar171 ▴ 20
4
votes
4
replies
4.7k
views
Bad volcano plot
diferential-gene-expression rna-seq sc-rnaseq
updated 4.1 years ago by ▴ 120 • written 4.1 years ago by ★ 1.7k
0
votes
6
replies
2.1k
views
Mapping unique GO term description given a specific GO id
genomics
updated 4.1 years ago by 4.2k • written 4.1 years ago by • 0
1
vote
4
replies
1.4k
views
Extract fastq reads by lists of sequences
fastq NGS genome genomics
updated 2.7 years ago by 45k • written 4.1 years ago by • 0
5
votes
4
replies
5.6k
views
python calculation of protein multiple sequence alignment
python alignment conservation
updated 2.9 years ago by ▴ 540 • written 5.1 years ago by ▴ 30
5
votes
6
replies
3.1k
views
Blank output When converting GFF3 file to GTF using either gffread or AGAT
agat gffread conversion
updated 4.1 years ago by 9.3k • written 4.1 years ago by ▴ 100
1
vote
10
replies
3.3k
views
Samtools coverage results
NGS
4.1 years ago by smrutimayipanda ▴ 20
0
votes
3
replies
1.2k
views
Package or tool to find annotations for *Candida albicans* in R
candida biomaRt probe R
updated 4.1 years ago by ▴ 350 • written 4.1 years ago by • 0
2
votes
2
replies
1.5k
views
More results when prefiltering in DESeq2
deseq2 prefiltering
4.1 years ago by Stella • 0
0
votes
10
replies
5.2k
views
How to align fastq files against a reference assembly
assembly alignment bacterial hisat2
updated 4.1 years ago by ▴ 350 • written 4.1 years ago by ▴ 10
0
votes
3
replies
1.8k
views
Interpreting I-TASSER output
Protein structure
4.1 years ago by kishorssf91 ▴ 20
0
votes
0
replies
864
views
Phasing and imputation with Shapeit
imputation Shapeit phasing
4.1 years ago by PKW ▴ 110
0
votes
0
replies
2.0k
views
Job: Bioinformatics Engineer, Molecular Diagnostics Labs, UCLA Health
scientist clinical variant bioinformatician engineer
4.1 years ago by Cyriac Kandoth 6.1k
0
votes
5
replies
2.0k
views
How can I extract base and read name based on position from bam file?
bam sam genotype
4.1 years ago by gh • 0
1
vote
2
replies
1.2k
views
Can we use basespace illumina link instead of https://www.ebi.ac.uk/ in our papers
RNA-Seq
updated 4.1 years ago by 11k • written 4.1 years ago by ▴ 10
0
votes
1
reply
1.3k
views
How to view fastqc output file in html format which is on remote server
remote linux ssh
updated 4.1 years ago by 154k • written 4.1 years ago by ▴ 20
4
votes
5
replies
2.0k
views
pseudogenes and their parent gene common regions
calling pseudogene genomics variant
updated 10 months ago by • 0 • written 4.1 years ago by ▴ 60
2
votes
4
replies
1.4k
views
how to seperate names using awk
linux awk shell
4.1 years ago by szp770 ▴ 10
0
votes
1
reply
1.3k
views
Running STAR-SEQR with star outputs
STAR-SEQR STAR fusion RNAseq
updated 4.1 years ago by 154k • written 4.1 years ago by ▴ 30
0
votes
1
reply
1.1k
views
LIMMA
Limma
updated 4.1 years ago by 89k • written 4.1 years ago by • 0
4
votes
2
replies
2.1k
views
free online tools to build scientific figures/tables for journal/thesis
illustrations scientific figures
4.1 years ago by putty ▴ 40
0
votes
0
replies
723
views
Differential splicing/transcript usage/isoform analysis of iCell8 (SMART-seq v2) full transcriptome single cell data in conjunction with Seurat
SingleCell
4.1 years ago by nikofleischer • 0
3
votes
5
replies
3.0k
views
How to replace row names in DESeq2 rlogTransformation matrix with actual gene name info present on another sheet?
DESeq2 R
updated 4.1 years ago by 56k • written 4.1 years ago by ▴ 30
0
votes
0
replies
792
views
How to analyze the generated VCF file, what to do if you have multiple VCF file for the same gene?
bwa vcf BAM SAM sequence
4.1 years ago by catalyst ▴ 10
1
vote
0
replies
686
views
Intersecting Encode peaks to search for tissue specific peaks?
encode
4.1 years ago by Michelle ▴ 10
0
votes
2
replies
2.1k
views
Sambamba
install sambamba ubuntu
updated 4.1 years ago by ▴ 940 • written 4.1 years ago by • 0
4
votes
3
replies
7.2k
views
PLINK Haplotype blocks estimation not working
PLINK haplotype-block
updated 4.1 years ago by ▴ 10 • written 9.2 years ago by • 0
0
votes
0
replies
785
views
GO Enrichment Analysis in R - Count all the parents of each Term
Annotations Analysis Enrichment R GO
4.1 years ago by rrapopor ▴ 40
0
votes
1
reply
1.0k
views
GATK call arm level chromosome copy number variations (cnv)
cna gatk cnv
updated 4.1 years ago by ★ 1.2k • written 4.1 years ago by ▴ 100
1
vote
14
replies
3.3k
views
7 follow
Looking tools for genes annotation
Genome annotation
updated 4.1 years ago by 16k • written 4.1 years ago by ▴ 20
1
vote
2
replies
1.2k
views
Doubts with Stacked barplot using R ggplot2
stacked rstudio ggplot2 barplot
4.1 years ago by Camilo Andres ▴ 40
0
votes
0
replies
904
views
Calculation of the GRM in GCTA
GCTA GRM
4.1 years ago by anbai • 0
1
vote
1
reply
919
views
Filter dosage file by list of SNP IDs
dosage snp genomics
4.1 years ago by James ▴ 10
0
votes
2
replies
1.4k
views
up-down regulated using log2FC
RNA-Seq
updated 3.3 years ago by 45k • written 4.1 years ago by ▴ 10
18
votes
24
replies
6.5k
views
Differential Gene Expression
DEG R
4.0 years ago by anasjamshed ▴ 140
1
vote
1
reply
1.1k
views
normality assumption for GWAS QT
assumption GWAS linear normality regression
updated 4.1 years ago by ▴ 940 • written 4.1 years ago by ▴ 10
3
votes
3
replies
1.4k
views
tool or database to convert Gene ID to genomic position
hg38 gene conversion id
updated 4.1 years ago by 154k • written 4.1 years ago by ▴ 60
1
vote
2
replies
2.4k
views
parsing gbk files (antismash result)
awk biopython gbk antismash bash
4.1 years ago by v.berriosfarias ▴ 140
2
votes
4
replies
2.6k
views
How to cite a pathway from WikiPathways in text and in references in APA format
wikipathways
written 4.4 years ago by ▴ 70
0
votes
0
replies
596
views
distinguish between alleles and isoforms in a de novo assembly
assembly
4.1 years ago by utsafar ▴ 80
6
votes
7
replies
6.5k
views
Regarding finding hub genes using WGCNA
gene-expression hub-genes WGCNA
updated 4.1 years ago by 3.9k • written 4.1 years ago by ★ 1.9k
0
votes
2
replies
1.2k
views
How to taxonomically subsample a proteomes file ?
proteomes faa taxonomy sampling
4.1 years ago by Shaurya • 0
2
votes
4
replies
1.6k
views
A question about scRNA-seq analysis
analysis scRNA-seq
updated 4.1 years ago by 89k • written 4.1 years ago by ▴ 10
0
votes
0
replies
653
views
H & E images ANALYSIS protocol
analysis image HnE
4.1 years ago by David_emir ▴ 500
0
votes
2
replies
2.1k
views
cellranger count help
cell_cellranger single
updated 4.0 years ago by ▴ 100 • written 4.1 years ago by • 0
1
vote
4
replies
1.5k
views
snp analysis
snp vcf statistics
4.1 years ago by priyanka ▴ 20
0
votes
0
replies
1.2k
views
Why is there not a intronsBy() function in GenomicFeatures? only intronsByTranscript()?
GenomicRanges GenomicFeatures genic introns intronsbytranscript
4.1 years ago by Pratik ★ 1.1k
0
votes
2
replies
1.3k
views
qPCR data analysis
qPCR Statistics
4.1 years ago by mshubham • 0
0
votes
0
replies
622
views
Association test to get p values and OR in plink2, and file input format
association plink2 input GWAS
4.1 years ago by Michelle • 0
0
votes
0
replies
601
views
RT-qPCR really high fold change
fold DDCT RT-qPCR change
4.1 years ago by AP ▴ 80
122,022 results • Page 588 of 2441
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Answer: Should differential expression analysis be incorporated in cross validation for
Answer: Scientific Names In Blast Output And Databases
Answer: Scientific Names In Blast Output And Databases
Scientific Names In Blast Output And Databases
Answer: 1 vs 1 DEG analysis in scrna seq data
Answer: samtools 1.0 'index' : CSI index vs BAI index ?
Answer: samtools 1.0 'index' : CSI index vs BAI index ?
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Comment: Should differential expression analysis be incorporated in cross validation for by yordany.perdigon • 0
Thank you! This was very helpful
Answer: What is the length of the longest ORF appearing in reading frame 2 of any of the by fra.r.silvestro ▴ 10
I suppose that this is a good resolution: frame = 2 protein_seq_frame2 = sequence[frame -1:] protein_seq_frame3 = protein…
Comment: HDOCK Server Error! by GenoMax 154k
This could be caused by the line endings that differ between macOS and Windows. Generally a utility like `dos2unix` can help fix this. You …
Comment: What is the length of the longest ORF appearing in reading frame 2 of any of the by Mensur Dlakic ★ 30k
Generally speaking, we are not here to provide code review service and/or fix code for what appears to be a school assignment. If you have …
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Istvan Albert 103k
We don't have 6 minutes to watch something without even knowing what it does. I would recommend that you provide a brief explanation of wh…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Yang • 0
Thanks for the reply, I simply recorded the screen and used brave to integrate fastqc analysis. You can click the link below to view. In ge…
Answer: Variant Normalization by Istvan Albert 103k
The purpose of normalization is to ensure that identical variants are represented identically. When not normalized, the same variants may …
Answer: Should differential expression analysis be incorporated in cross validation for by i.sudbery 22k
Yes, their would potentially be data leakage if you perform the DE before dividing your datasets into folds. Its unclear how much of a prob…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Istvan Albert 103k
I visited the website, but I couldn't understand what problem the software solves. You need to do a much better job of communicating the p…
Comment: Choosing enrichment analysis tool by i.sudbery 22k
How have these gene lists been obtained?
Comment: NOVOPlasty assembly fails with “INVALID SEED” using first read as seed by GenoMax 154k
> I used the first read sequence from ERR322446.filtered.A.fq as the seed `ERR322446` appears to be a human sample. Did you convert the …
Answer: Issue with Snippy 4.6.0 by GenoMax 154k
> Each individual Snippy run completes successfully and reports multiple variants When you run `snippy-core` there is no reference provid…
Comment: Quantification using salmon in alignment-based mode after minimap2 run by Assa Yeroslaviz ★ 1.9k
Hi Rob, sorry for the late question. I was wondering though, if I can also quantify transposable elements using oarfish? Should I increas…
Answer: 1 vs 1 DEG analysis in scrna seq data by ATpoint 89k
The only option you have is to treat every single cell as a replicate. That has the obvious downside that any effect can be a donor-unique …
Answer: GUI commercial software for 10x single cell gene expression analysis by firestar ★ 1.7k
An open-source option: [kana](https://www.kanaverse.org/kana/).
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