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121,961 results • Page 187 of 2440
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trimming primers using iVar
trim iVar primer
updated 23 months ago by 154k • written 23 months ago by • 0
1
vote
1
reply
791
views
abyss assembler
de-novo assembler
updated 23 months ago by 45k • written 23 months ago by • 0
1
vote
2
replies
1.5k
views
mv Question during kraken2-build (building database)
16s metagenomics kraken kraken2
23 months ago by 10mz1 ▴ 10
0
votes
2
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839
views
filtering samples
R statistics
updated 23 months ago by 154k • written 23 months ago by ▴ 480
0
votes
0
replies
457
views
What is Total_DP in gnomAD Coverage File
depth coverage gnomad
updated 23 months ago by 45k • written 23 months ago by • 0
1
vote
1
reply
660
views
Transcript count normalization using Deseq2
transcript DESeq2
updated 23 months ago by 89k • written 23 months ago by ▴ 20
4
votes
0
replies
1.0k
views
Herald: The Biostar Herald for Monday, November 06, 2023
herald
23 months ago by Biostar 3.6k
0
votes
1
reply
1.7k
views
convert matrix files from 10X (single cell) to h5 file
scRNA-seq
updated 23 months ago by ★ 3.1k • written 23 months ago by ▴ 280
8
votes
6
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1.5k
views
Microarray data analysis with and without contrast
microarray limma
23 months ago by 1769mkc ★ 1.3k
0
votes
0
replies
370
views
significant SNPs from per-phenotype GWAS summary statistics
SNP GWAS
23 months ago by Jennifer • 0
0
votes
0
replies
442
views
Braker - gc_content.stderr
Braker GC-content
updated 23 months ago by 45k • written 23 months ago by • 0
0
votes
1
reply
951
views
tumor fraction estimation and fragment size plot using sWGS data
ctDNA NGS WGS
updated 23 months ago by 45k • written 2.9 years ago by ▴ 930
0
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0
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806
views
Seurat: Visualize individual cell clusters colored by meta.data variable
UMAP PCA Seurat
23 months ago by Sergio • 0
0
votes
0
replies
534
views
What is the difference between CNV binning and aligning to gene?
CNV transcriptomics
23 months ago by QX ▴ 80
0
votes
0
replies
519
views
Confirming Identity of clone in Phylogeny
Genome-Sequencing isolates Phylogeny Clinical
updated 23 months ago by 45k • written 23 months ago by ▴ 50
0
votes
2
replies
833
views
How to Design a Segmented RNA Virus Vector
Virus TAR rescue RNA
updated 23 months ago by 154k • written 23 months ago by • 0
0
votes
0
replies
555
views
How to deal with mirdeep2 output "miRBase miRNAs not detected by miRDeep2"
miRNAs miRBase
23 months ago by otieno43 ▴ 40
0
votes
3
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1.4k
views
Package version warning - package ‘extdata’ is not available for Bioconductor version '3.17'
R Bioconductor
updated 23 months ago by 45k • written 23 months ago by ▴ 180
0
votes
3
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1.1k
views
Two days_to_last_followups encountered when conducting Survival Analysis with TCGA Clinical Data
TCGA Clinical
updated 22 months ago by ★ 1.3k • written 23 months ago by • 0
2
votes
1
reply
784
views
zero counts for all genes in RNAseq data of Ferret
RNA-seq DGE
updated 23 months ago by 45k • written 23 months ago by ▴ 280
0
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0
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625
views
News: Course - Introduction to Bayesian Data Analysis
R Statistics Bayesian Regression-Modeling
updated 22 months ago by 45k • written 23 months ago by ★ 2.6k
0
votes
0
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450
views
Tool similar to Centrifuge for bisulfite treated DNA
methylation metagenomics WGBS
23 months ago by Carlos • 0
1
vote
3
replies
1.1k
views
Differential Gene Expression between patients and not groups
differential-gene-expression voom limma
updated 23 months ago by 13k • written 23 months ago by ▴ 10
25
votes
4
replies
52k
views
bcftools compressing and indexing vcf files
sequence bcftools vcf index
updated 23 months ago by 154k • written 7.1 years ago by ▴ 280
0
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0
replies
545
views
Dereplication of nanopore sequences using q2ONT workflow
qiime2 dereplication
23 months ago by muhammad.akram ▴ 10
7
votes
2
replies
1.1k
views
eukaryotic genome databases
genome eukaryotes database
updated 23 months ago by 154k • written 23 months ago by • 0
2
votes
2
replies
1.5k
views
How to use awk and grep -v option to exclude several patterns from several lines
AWK GREP
updated 23 months ago by 12k • written 23 months ago by ▴ 40
1
vote
1
reply
814
views
Cannot open file.fasta. Now exit to system...
Cannot open file.fasta SOAPdenovo-Trans
updated 23 months ago by 154k • written 23 months ago by ▴ 190
1
vote
7
replies
1.8k
views
help with weird PCA? (vcfR)
vcftools vcfR R
23 months ago by MaeBH • 0
0
votes
1
reply
1.1k
views
Annotation result for phylogenetic analysis shows no common evolutionary gene in contigs, can i change the contigs?
contigs phylogenetic-annotation
updated 23 months ago by 45k • written 23 months ago by • 0
1
vote
1
reply
841
views
Genbank Protein accession numbers to gene name
genbank gene acession
updated 23 months ago by 154k • written 23 months ago by • 0
0
votes
1
reply
706
views
jalview doesnt align my sequences
jalview
updated 23 months ago by ★ 30k • written 23 months ago by • 0
1
vote
2
replies
1.2k
views
Browser based tool for generating protein alignment figure
protein
updated 23 months ago by ★ 4.3k • written 23 months ago by ▴ 80
1
vote
2
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1.5k
views
Bulk RNAseq Salmon index building which transcriptome to use
Salmon RNA-seq
23 months ago by Orange ▴ 30
3
votes
9
replies
3.9k
views
Differential Expression Analysis using Bioconductor (RStudio) and GEO2R (GEO)
R gene DEG Bioconductor microarray
updated 23 months ago by • 0 • written 5.6 years ago by ▴ 30
0
votes
1
reply
807
views
How to efficiently count missense mutations from an annotated vcf file?
transcriptome Galaxy breast-cancer
updated 23 months ago by 45k • written 23 months ago by • 0
3
votes
4
replies
1.3k
views
How to make 4-column annotation file
snpEFF regenie VEP annotation
updated 4 months ago by 12k • written 23 months ago by ▴ 10
0
votes
1
reply
1.1k
views
Tutorial: Using easyPubMed and scholar package to get all citations of your paper
scholar easyPubMed
4 months ago by rohitsatyam102 ▴ 940
1
vote
10
replies
3.7k
views
Locally annotating SNP IDs and Gene names of called variants
snpEff VEP SNP GWAS variant
updated 23 months ago by ★ 2.4k • written 23 months ago by ▴ 50
12
votes
21
replies
10k
views
7 follow
Illumina HumanHT-12 V4.0 expression beadchip
R lumi LIMMA
updated 23 months ago by ★ 8.3k • written 5.5 years ago by ▴ 50
0
votes
1
reply
2.1k
views
Job: Laboratory Head Artificial Intelligence and Machine Learning (WEHI, Australia)
Australia machine-learning
23 months ago by Gordon Smyth ★ 8.3k
0
votes
2
replies
1.1k
views
Plink Error
PLINK
updated 23 months ago by 11k • written 23 months ago by • 0
2
votes
1
reply
1.6k
views
Error when reading in loom files with loompy
seurat python loompy
updated 23 months ago by 154k • written 4.3 years ago by ▴ 10
0
votes
0
replies
858
views
Tool: deepBreaks: a machine learning tool for identifying and prioritizing genotype-phenotype associations
python genetics
updated 23 months ago by 45k • written 23 months ago by • 0
8
votes
6
replies
2.3k
views
How to create a Venn Diagram for overlapping SVs from a merged VCF
truvari structural-variants r vcf venn-diagram
23 months ago by Matteo Ungaro ▴ 130
1
vote
2
replies
879
views
Picard downsample metric file
Picard
updated 23 months ago by 154k • written 23 months ago by ▴ 10
0
votes
4
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1.5k
views
Tutorial: Reverse pharmacology: how to predict drugs with genes or disease names?
drugs drug-targets genes
23 months ago by Coremine Medical ▴ 20
5
votes
5
replies
1.3k
views
SP500 useable read lengths
Illumina NovaSeq NGS
updated 23 months ago by 154k • written 23 months ago by ▴ 650
1
vote
1
reply
617
views
Fetch best fitted ligand from PDB
Structural-database PDB
23 months ago by yhdist ▴ 70
4
votes
9
replies
2.8k
views
Snakemake issue with wrappers
Python Snakemake
23 months ago by Begonia_pavonina ▴ 210
121,961 results • Page 187 of 2440
Recent Votes
A: Which is the proper RNA-seq count table transformation to perform hierarchial cl
Answer: Differences between published differential gene expression results and own analy
Answer: If TPM is not comparable across cohorts, can it be used as the input for ML mode
Answer: If TPM is not comparable across cohorts, can it be used as the input for ML mode
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
sra-explorer : find SRA and FastQ download URLs in a couple of clicks
Comment: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
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Comment: Help interpreting BLASTn results and phylogenetic tree for genetics practical by GenoMax 154k
> I’m aiming to write a clear, referenced report Is this an assignment or are you working on a project of your own? Sounds like this is a…
Comment: Errors with RSEM/bowtie2 by GenoMax 154k
That is good confirmation. Bacl to the error message. > I don't know how to fix this, given that I already did the trimming steps. DId yo…
Comment: Differences between published differential gene expression results and own analy by dsull ★ 7.7k
Honestly, those things shouldn't result in a considerable discrepancy. The largest difference will come from the post-processing & analysi…
Answer: Differences between published differential gene expression results and own analy by Ales ▴ 50
I second the comment about comparing the top 100 genes - if you see vastly different results, I would lean closer to examining protocols th…
Answer: Help interpreting BLASTn results and phylogenetic tree for genetics practical by Mensur Dlakic ★ 30k
I think what you are asking involves too much work for anyone to explain it in granular detail. But who knows, maybe there is a good soul o…
Answer: Differences between published differential gene expression results and own analy by yura.grabovska ▴ 830
When you say vastly different, what do you mean exactly? Does your top 100 up/down not match theirs at all?
Comment: Functional prediction for proteins of bacteria. by colindaven 8.0k
Have a look at tools like SnpEff or Ensembl VEP. Perhaps your bacterial sp is included.
Comment: Errors with RSEM/bowtie2 by Olivia • 0
Yes, I already made the transcriptome with these tools, and the CD-HIT-EST fasta file is the transcript file that I am using for RSEM. Then…
Comment: sra-explorer : find SRA and FastQ download URLs in a couple of clicks by Guilherme • 0
Oh, ok. It seems like NCBI stores the files in SRA format (thus needing conversion and database lookups by sra toolkit tools) and EBI store…
Comment: help with modkit on nanopore sequencing data. by andres.firrincieli 3.9k
On the DMR tutorial page, they retrieve Human CpG Islands from the UCSC Table Browser. You can do the same thing for Mouse CpG Islands. Hav…
Comment: After doublet detection in 10x scRNA-Seq data, there is still evidence of double by yura.grabovska ▴ 830
Yes but the problem is that biological knowledge is never fully encompasing. While I can say that a cell expressing CD45 alongside astrocyt…
Comment: DNA copy number blacklist for excluding common unreliable regions by yura.grabovska ▴ 830
Human genome, ideally hg38
Comment: Is Newbler still available for download by anweshaash • 0
Hello, I am wondering if you got access to the software or not. I am looking to use Newbler for my research and I contacted Roche too but t…
Comment: Errors with RSEM/bowtie2 by GenoMax 154k
> I have previously run Trinity with the Trimmomatic step as well as CD-HIT-EST. I assume you did the above to generate the transcriptome,…
Answer: With 10x Visum HD : How to map the barcode id to the barcode sequence ? by sacha ★ 2.5k
Got it https://kb.10xgenomics.com/hc/en-us/articles/115004506263-What-is-a-barcode-inclusion-list-formerly-barcode-whitelist
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