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122,200 results • Page 650 of 2444
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3
votes
10
replies
2.4k
views
making of count matrix
scRNA Mutational seq data
4.5 years ago by princy149 • 0
2
votes
1
reply
968
views
From which genome assembly do these coordinates come?
Genome
updated 4.5 years ago by 9.0k • written 4.5 years ago by ★ 2.1k
1
vote
1
reply
851
views
Finding equivalence between annotations from different species
Genome RNAseq Stringtie Annotation
updated 4.5 years ago by ▴ 30 • written 4.5 years ago by • 0
1
vote
0
replies
924
views
Comparison of Bisulfite sequencing results with Methylkit and edgeR
edgeR sequencing Bisulfite methylkit
4.5 years ago by iraia.munoa ▴ 130
1
vote
0
replies
2.6k
views
SPAdes running finished abnormally, err code: -6
SPAdes_Running_finish_Abnormally
4.5 years ago by ELIAS GEORGE ▴ 10
6
votes
6
replies
12k
views
Seurat to Dataframe with ONLY counts, cells, and cluster labels?
R RNA-Seq Seurat
4.5 years ago by Kind Katydid ▴ 30
0
votes
0
replies
723
views
The accession number of generated consensus sequence and reference sequence
generation consensus sequence
4.5 years ago by mngpn • 0
7
votes
7
replies
10.0k
views
How to fix missing values error message after SCTransform (Seurat)?
Seurat R SCTransform
4.5 years ago by Pratik ★ 1.1k
0
votes
0
replies
1.1k
views
gPLINK error
error gPLINK PLINK
4.5 years ago by Anel • 0
0
votes
0
replies
759
views
PHG - RunHapConsensusPipelinePlugin - "0 taxa used to build distance matrix" Error
rtassel PHG tassel rPHG
4.5 years ago by Orionzhou ▴ 10
3
votes
1
reply
1.8k
views
What is the x-axis in ridgeplot produced by enrichplot package?
ridgeplot enrichplot clusterProfiler gsea
updated 4.5 years ago by ★ 19k • written 4.5 years ago by • 0
0
votes
0
replies
939
views
tree in newick format for
gene newick MCScanX
4.5 years ago by Ric ▴ 440
0
votes
1
reply
1.1k
views
Prediction of protein sub-cellular localisation
Protein Proteome Localisation Prediction
updated 4.5 years ago by ★ 4.0k • written 4.5 years ago by ▴ 10
1
vote
3
replies
1.4k
views
[DESeq2] Can I setup a formula that includes a common time zero and also a two-factor analysis?
DESeq2 two-way two-factor fitness
updated 4.5 years ago by 9.0k • written 4.5 years ago by ▴ 40
0
votes
2
replies
2.9k
views
" Exon/exon junction cannot be found for submitted PCR template. "--how to bypass, or work with?
exon gene primer splicing intron
4.5 years ago by lsizemor • 0
4
votes
5
replies
3.2k
views
Most of the top marker genes identified by FindConservativeMarkers (seurat) have negative logFC.
findconservativemarkers single seurat marker cell
updated 4.5 years ago by ★ 19k • written 4.5 years ago by ▴ 300
5
votes
3
replies
4.5k
views
KEGG NOT RUN with new Bioconductor version 3.13 and 4.1 R version
R 4.1
4.5 years ago by Victoria ▴ 10
2
votes
5
replies
1.7k
views
Ballgown Package of R for the Differential Expressed Genes (DEGs)
programming
updated 4.5 years ago by 90k • written 4.5 years ago by • 0
1
vote
1
reply
972
views
Error in plotMA while using limma package
limma
updated 4.5 years ago by 21k • written 4.5 years ago by • 0
0
votes
0
replies
572
views
Choosing the appropriate covariates for quantitative gwas model
GWAS
4.5 years ago by b.quoc • 0
13
votes
6
replies
1.7k
views
6 follow
Is training data used exclusively in machine learning
learning machine
updated 4.5 years ago by ★ 90k • written 4.5 years ago by ▴ 410
1
vote
2
replies
1.3k
views
CHIPseeker error- cannot annotate peaks
CHIP-seeker annotation
4.5 years ago by rb56 ▴ 30
0
votes
3
replies
1.5k
views
Job: Bioinformatics Curator Positions with Computercraft @ NCBI
biology ncbi curator
updated 4.4 years ago by 45k • written 4.5 years ago by ▴ 90
1
vote
10
replies
3.2k
views
Extract NCBI's refseq assembly accession number from nuccore IDs
sequence
updated 4.5 years ago by 45k • written 4.5 years ago by ▴ 10
0
votes
0
replies
899
views
errors in polishing after clustering using isoseq3
ZMWs isoseq3 polish
4.5 years ago by wzw0029 • 0
1
vote
2
replies
795
views
Cytoscape - knowing and exporting layouts
Cytoscape
4.5 years ago by lagartija ▴ 160
0
votes
1
reply
786
views
How to extract a particular aligned sequence from an MSA?
Clustal Fasta MSA
updated 4.5 years ago by 154k • written 4.5 years ago by • 0
66
votes
17
replies
42k
views
16 follow
Scientific Names In Blast Output And Databases
blast blast+
updated 2.9 years ago by 45k • written 12.4 years ago by ★ 2.1k
0
votes
0
replies
678
views
Illumina Omni2.5 genotyping get actual genotypes.
genotyping omni illumina
4.5 years ago by nhaus ▴ 420
0
votes
0
replies
755
views
DNAcopy object
segmentation segment DNAcopy cna
4.5 years ago by GG • 0
1
vote
9
replies
5.0k
views
7 follow
de-novo whole genome assembly and annotation
Assembly
updated 4.5 years ago by ▴ 50 • written 8.9 years ago by • 0
3
votes
11
replies
2.8k
views
Simple genome annotation using transcripts data
annotation fasta gff
updated 4.5 years ago by ▴ 50 • written 5.4 years ago by ★ 1.5k
2
votes
7
replies
4.2k
views
Using RNA seq for genome annotation
maker annotation
updated 4.5 years ago by 103k • written 8.5 years ago by ▴ 700
1
vote
3
replies
1.7k
views
Genome annotation: small dataset of genomes
genome gene alignment
updated 4.5 years ago by ▴ 50 • written 7.1 years ago by • 0
2
votes
5
replies
13k
views
Software for Genome Annotation
gene
updated 4.5 years ago by ▴ 50 • written 7.4 years ago by ▴ 10
0
votes
3
replies
2.9k
views
Genome annotation using transcriptome data
genome annotation transcriptome
updated 4.5 years ago by ▴ 50 • written 7.2 years ago by ▴ 10
2
votes
6
replies
2.8k
views
How to do Genome Annotation?
GenomeAnnotation
updated 4.5 years ago by ▴ 50 • written 8.8 years ago by ▴ 60
6
votes
6
replies
2.3k
views
de novo annotation of plants genome
annotation genome plants
updated 4.5 years ago by ▴ 320 • written 5.7 years ago by ▴ 350
9
votes
6
replies
5.7k
views
Best Genome Assembler and Genome Annotation tools and pipelines
annotation assembly genome birds
updated 2.5 years ago by 45k • written 6.4 years ago by ▴ 10
0
votes
3
replies
2.7k
views
Annotation for denovo genomic data
genome gene
updated 4.5 years ago by ▴ 50 • written 8.1 years ago by • 0
2
votes
2
replies
2.7k
views
RMSD between re-docked complex and co-crystallized complex
rmsd ligand protein docking
updated 4.5 years ago by 56k • written 4.5 years ago by ▴ 20
2
votes
6
replies
3.2k
views
How to extract information about which chromosome it is, from bam file using pysam?
pysam bam
updated 4.5 years ago by 21k • written 4.5 years ago by ▴ 30
1
vote
1
reply
733
views
Sugarcane Rerence sequence Assembly
NGS reference Sugarcane transcriptome data genome
updated 4.5 years ago by 154k • written 4.5 years ago by • 0
3
votes
5
replies
4.7k
views
How to install argparse for python 2.7
python2 pip
updated 4.5 years ago by ★ 1.7k • written 4.5 years ago by ▴ 20
0
votes
1
reply
763
views
per tile sequence quality
fastqc
updated 4.5 years ago by 3.9k • written 4.5 years ago by • 0
1
vote
0
replies
1.2k
views
Correlation analyses on TCGA data
TCGA edgeR Normalization TPM Correlation
4.5 years ago by mario.keller.1988 ▴ 10
0
votes
0
replies
734
views
Double sample type for gene level copy number
level GDC CNA gene number TCGA-COAD copy
4.5 years ago by matcap97 • 0
1
vote
1
reply
968
views
Sample-level VCF filters
sample VCF filter
updated 4.5 years ago by 12k • written 4.5 years ago by • 0
0
votes
2
replies
1.3k
views
How to download output files from PANNZER2 web server?
Annotation
updated 2.7 years ago by ▴ 20 • written 4.7 years ago by ▴ 20
1
vote
1
reply
1.5k
views
MEGAN6 Ultimate Edition
Metagenomics MEGAN6
updated 4.5 years ago by 20 • written 4.5 years ago by • 0
122,200 results • Page 650 of 2444
Recent Votes
Answer: best practice for diploid variant calling
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Comment: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Midpoint rooting IQTREE newick file moves node support around
Answer: Subsetting before QC in Spatial Transcriptomics
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Recent Replies
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk • 0
thanks for the quick reply. i posted the screenshot. gatk-internally, there is still the difference using -ERC or not, priot is getting …
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk • 0
here the igv view. showing the histogram for all samples plus the reads for one: ![enter image description here][1] and expanded view of …
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Arup Ghosh 3.5k
Check the read lengths to make sure the files are correct.
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by Pierre Lindenbaum 166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
Comment: Can i use orthofinder for small protein datasets and not full proteome? by alexandrakortsi • 0
By sequence. Thank you for your response!
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding by xinguok794 ▴ 10
Thank you for your reply! Unfortunately, despite running YAHS with `--no-contig-ec`, the QV value of the resulting FASTA file did not impro…
Comment: Subsetting before QC in Spatial Transcriptomics by Kent ▴ 30
Hi Kevin, Thanks for the detailed explanation. Due to the characteristics of the datasets, we initially used very lenient quality control…
Comment: Midpoint rooting IQTREE newick file moves node support around by Luca Arbore ▴ 10
Thank you very much Kevin, it worked!
Comment: ID unifiying across different datasets by GenoMax 154k
In this case the entry notes that this is likely the product of a pseudogene: https://www.uniprot.org/uniprotkb/Q5VTE0/entry and existence …
Comment: Comparison of different RNAseq data sets by DrSmad ▴ 10
Each lab contributes both control and LPS. Example, for cell line A_lab1 did and analysis on control and LPS-6h. Cell line B_lab2 did contr…
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
sorry, why some gene names are often lacking though the Uniprot ID is still valid (using biomart)?
Comment: snpEff: Unsupported structural variant types by shpak.max ▴ 70
Unfortunately, while it ran without a problem initially, when I checked the run screen today, I saw the following error message (and unlike…
Comment: ID unifiying across different datasets by GenoMax 154k
You can use the [**ID mapping tool**][1] from UniProt site (third ID did not map from the list above): From To P68104 ENSG0000015…
Answer: The geo samples is not having sentrix id and sentrix position. But this informat by yura.grabovska ▴ 890
Crosspost from related question: https://www.biostars.org/p/9616466/#9616534 ``` ##Using R, illuminaio from Bioconductor library(…
Answer: Finding Sentrix ID in HM450K arrays by yura.grabovska ▴ 890
``` ##Using R, illuminaio from Bioconductor library(illuminaio) temp.idat <- readIDAT(file = "200379120087_R02C02_Grn.idat") tem…
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