Limit : this week
all time today this week this month this year
109 results • Page 2 of 3
Sort: Votes
Rank Views Votes Replies
0
votes
2
replies
180
views
Low mapping rate with Salmon
RNA-seq Salmon Quantification
updated 2 days ago by 19k • written 2 days ago by • 0
0
votes
0
replies
86
views
Analysis of the gene family of a genome.
Genome gene-family
updated 2 days ago by 43k • written 2 days ago by ▴ 80
0
votes
0
replies
162
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS Meta-analysis
updated 2 days ago by 43k • written 2 days ago by ▴ 10
0
votes
0
replies
273
views
Choice of relatedness cutoff for GWAS of a large cohort (>100K samples)
relatedness IBD GWAS
updated 2 days ago by 43k • written 14 months ago by ▴ 10
0
votes
0
replies
103
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment Genomics Ka-Ks
updated 2 days ago by 43k • written 2 days ago by ▴ 200
0
votes
1
reply
134
views
Identification of Transgene insertion sites
Transgene Whole-Genome-Sequencing transgene-sites
updated 2 days ago by 43k • written 2 days ago by • 0
0
votes
8
replies
283
views
Error in cnetplot enrichplot package
R
updated 2 days ago by 43k • written 2 days ago by • 0
0
votes
0
replies
72
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
2 days ago by alifafiq1 • 0
0
votes
0
replies
90
views
Merging replicates from Encode project
CHIP-seq encode
2 days ago by Nurken • 0
0
votes
1
reply
144
views
Plot DNA methylation level of DMR on the basis of certain genes
rrbs methylkit
updated 1 day ago by 141k • written 1 day ago by ▴ 20
0
votes
0
replies
82
views
Software to calculate RSCU, ENC other than codonw
rscu codonw
updated 1 day ago by 43k • written 1 day ago by • 0
0
votes
0
replies
90
views
File with NCBI summary or Uniprot description
annotation visualisation NCBI Uniprot RNA
updated 1 day ago by 43k • written 2 days ago by • 0
0
votes
1
reply
123
views
Subset Seurat object from Xenium spatial data
Seurat Xenium Spatial
updated 1 day ago by ★ 2.3k • written 2 days ago by ▴ 110
0
votes
0
replies
89
views
The concept of co-occurrence network structure
co-occurence microbiome network
1 day ago by ohtang7 ▴ 40
0
votes
0
replies
80
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
HMMcopy Copy-number-analysis R
updated 1 day ago by 43k • written 2 days ago by • 0
0
votes
1
reply
142
views
Find subcluster under a cluster, find differential genes in one cluster between 2 samples??
clustering subclustering scRNAseq
updated 1 day ago by ★ 2.3k • written 1 day ago by • 0
0
votes
0
replies
88
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile scvelo scipy annData numpy
1 day ago by Kash ▴ 110
0
votes
10
replies
378
views
How do I use the STARSolo aligner with MGI DNBelab C series HT scRNAseq libraries?
STARSolo scRNA-seq STAR snRNA-seq MGI
1 day ago by atowns21 • 0
0
votes
1
reply
127
views
How to solve this RoseTTAFold colaboratory error?
modeling Google Colaboratory RoseTTAFold protein
updated 1 day ago by ★ 27k • written 1 day ago by • 0
0
votes
6
replies
423
views
Use of Kraken output for functional analysis
metagenomics kraken shotgun
updated 1 day ago by • 0 • written 23 days ago by ▴ 20
0
votes
0
replies
97
views
Sequence BLAST in plus/minus and plus/plus
blast CRISPR strand sequencing
1 day ago by salias • 0
0
votes
5
replies
275
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap alignment minimap2 GRCh38 assembly
1 day ago by njornet ▴ 20
0
votes
0
replies
155
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome PGAP NCBI roary Prokka
22 hours ago by pramach1 ▴ 40
0
votes
5
replies
205
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative ncbi asembly refseq
updated 21 hours ago by 141k • written 22 hours ago by ▴ 90
0
votes
1
reply
111
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate GEMMA GWAS
updated 20 hours ago by • 0 • written 1 day ago by • 0
0
votes
0
replies
94
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA GDCprepare
updated 17 hours ago by 43k • written 21 hours ago by • 0
0
votes
0
replies
85
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq single-cell suppa alternative-splicing
updated 17 hours ago by 43k • written 1 day ago by • 0
0
votes
0
replies
77
views
Is result interpretation of the modelHomotypic function of the DoubletFinder correct?
doublet DoubletFinder Seurat modelHomotypic
updated 17 hours ago by 43k • written 1 day ago by • 0
0
votes
2
replies
216
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein FASTA alignment
updated 17 hours ago by 43k • written 1 day ago by ▴ 140
0
votes
1
reply
123
views
Annovar using R package
Annovar gnomAD R
updated 13 hours ago by 161k • written 16 hours ago by ▴ 40
0
votes
0
replies
66
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein pdb alpha-carbon
11 hours ago by 4fzcgueyp5 • 0
0
votes
0
replies
63
views
PCA plot
DESeq2 PCAplot
8 hours ago by Aaliya ▴ 10
0
votes
4
replies
195
views
different FeatureCounts output for the same data
fpkm Counts Rsubread rna-seq
3 hours ago by sehriban.buyukkilic ▴ 10
0
votes
0
replies
28
views
Why not use iBAQ for calculating differential abundance of proteins?
protein maxquant
3 hours ago by Aspire ▴ 300
0
votes
2
replies
91
views
Highest variable features in single cell data
cell single
1 hour ago by Kazo • 0
0
votes
1
reply
28
views
Why gatk VariantAnnotator required bam and coverage files
gatk VariantAnnotator
updated 1 hour ago by 161k • written 1 hour ago by • 0
0
votes
0
replies
17
views
BLAST using both nucleotides and taxonomic local databases
blast ncbi taxid taxonomy
44 minutes ago by Begonia_pavonina ▴ 150
0
votes
1
reply
398
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree microbiome
updated 6 days ago by 43k • written 19 months ago by • 0
0
votes
0
replies
2
views
Calling SE and TE using ROSE
Calling SE
1 minute ago by Manhezz • 0
0
votes
0
replies
157
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score tspex
updated 6 days ago by 43k • written 7 days ago by ▴ 10
0
votes
0
replies
175
views
Pruning with plink finds a majority of SNPs in very high LD
LD SNP plink pruning
6 days ago by enferdeflame • 0
0
votes
0
replies
211
views
Variant Generation Using Longshot
long-reads variant-calling ONT minion longshot
updated 6 days ago by 43k • written 6 days ago by ▴ 10
0
votes
1
reply
1.8k
views
Advice required for remove batch effect which perfectly collinear with contrast of interest
RNA-seq batch-effect
updated 6 days ago by 43k • written 6.6 years ago by ▴ 80
0
votes
0
replies
2.0k
views
NOISeq Batch Correction to RNA-seq data
Batch-effect RNA-Seq ARSyNseq limma NOISeq
updated 6 days ago by 43k • written 6.9 years ago by • 0
0
votes
2
replies
2.8k
views
RNA-seq unbalanced batch effect correction
limma RNA-Seq edgeR batch-effect
updated 6 days ago by 43k • written 7.0 years ago by • 0
0
votes
0
replies
1.9k
views
Correcting batch effect from known variables in RnBeads using Combat
Combat 450k methylation RnBeads batch-effect
updated 6 days ago by 43k • written 7.1 years ago by ▴ 40
0
votes
0
replies
1.9k
views
batch effect in radseq
radseq batch-effect SNP
updated 6 days ago by 43k • written 7.5 years ago by ▴ 50
0
votes
0
replies
731
views
Creating a stable batch-corrected scRNA-Seq data with multiple datasets and multiple integrations
RNA-Seq scRNA-Seq batch-effect
updated 6 days ago by 43k • written 3.4 years ago by ▴ 180
0
votes
1
reply
818
views
Bulk RNAseq MACS Sort Quality Contamination
EdgeR Batch-effect RNA-Seq
updated 6 days ago by 43k • written 3.7 years ago by • 0
0
votes
0
replies
1.2k
views
Batch estimate using kBET
batch-effect kbet
updated 6 days ago by 43k • written 4.0 years ago by • 0
109 results • Page 2 of 3
Recent Votes
Comment: Figures are disappeared from html report of SnpEff
Answer: Figures are disappeared from html report of SnpEff
Comment: How to trim transcripts using information from NCBI contamination screen report
Filtering rRNA contamination (indicated by GC content plots) from RNA-seq data
Filtering rRNA contamination (indicated by GC content plots) from RNA-seq data
A: What is the VEP Impact column?
is oxford nanopore technology data paired or single end sequencing?
Recent Locations • All
London, UK, just now
Estonia, 1 minute ago
Austria, 2 minutes ago
Ireland, 3 minutes ago
Belgium, 4 minutes ago
Saudi Arabia, 5 minutes ago
India, 5 minutes ago
Recent Awards • All
Popular Question to Hamtaro ▴ 50
Popular Question to Nicolas Rosewick 11k
Popular Question to Assa Yeroslaviz ★ 1.8k
Popular Question to Keem Uarren Eiryll • 0
Centurion to analyst ▴ 30
Popular Question to anasjamshed ▴ 120
Popular Question to camillab. ▴ 160
Recent Replies
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas by GenoMax 141k
At this point you should email NCBI help desk and ask them this question. If you get an answer then please post it back in this thread.
Comment: Figures are disappeared from html report of SnpEff by Pierre Lindenbaum 161k
the javascript in your html is deprecated or your firefox is just tool old.
Comment: Why gatk VariantAnnotator required bam and coverage files by Pierre Lindenbaum 161k
> I would like to ask why they may require the bam file for this function? hum.. if you want to add the coverage, where do you think gatk …
Comment: Figures are disappeared from html report of SnpEff by analyst ▴ 30
By following above approach I got this ![enter image description here][1] [1]: /media/images/b47490eb-d4c4-4f39-a7b2-f5b7b6b8
Comment: Highest variable features in single cell data by Kazo • 0
I apologize for the confusion. What I meant to say is that, for example, the Trbv17 gene appears among the variable genes. However, when I …
Answer: why renaming Idents in Seurat object doesn't work? by Assa Yeroslaviz ★ 1.8k
I manage to find a workwround, but I don't understand what I did wrong here. my solution was to extract the cluster column as vector and…
Answer: Finding orthologs between genome error by Adrian Altenhoff ★ 1.1k
Hi, thanks for letting us know. In a recent software update, we introduced a problem with the written splice information in the cached …
Comment: Fetch table from clinvar database according to a list of rsid by ashaneev07 ▴ 20
so which one should i prefer? i don't need the entire results i need the condition-Germline table only. (for eg:-from, https://www.ncbi.nlm…
Comment: To get p-values for the TPM by dsull ★ 5.8k
OK, not sure why your intention is to use RSEM p-values for, but at least tell us the commands you ran then otherwise how are we supposed t…
Comment: Fetch table from clinvar database according to a list of rsid by Pierre Lindenbaum 161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: different FeatureCounts output for the same data by sehriban.buyukkilic ▴ 10
Sure, I'll inquire about the version of Rsubread. I'll keep you posted if it works :) Thanks
Comment: different FeatureCounts output for the same data by sehriban.buyukkilic ▴ 10
Yeah, let me show you my featureCounts result, it looks like this. It's too low. [1]: /media/images/eb8293fe-e6ae-4b02-92e2-0ba2075b
Comment: Adding CB tag to bam file by Pierre Lindenbaum 161k
samtools addreplacerg is for read groups. This is not what OP asked.
Comment: Adding CB tag to bam file by Maria • 0
When I try ``` samtools addreplacerg -r "@CB\tID:$cell" -o $cell.bam $LINE``` the CB tag gets add to the header, but the tag in every line …
Answer: Figures are disappeared from html report of SnpEff by Pierre Lindenbaum 161k
the remote website providing the javascript or/and the images is down or you're now behind a proxy. Check the firefox console: https://fire…
Traffic: 2646 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6