Limit : this week
all time today this week this month this year
106 results • Page 2 of 3
Sort: replies
Rank Views Votes Replies
0
votes
1
reply
143
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
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
1
reply
133
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
0
replies
6
views
why renaming Idents in Seurat object doesn't work?
Seurat RenameIdents R
just now by Assa Yeroslaviz ★ 1.8k
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
210
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
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
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
730
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
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
0
votes
0
replies
1.8k
views
Differential expression using Scran batch corrected data
single-cell Batch-effect RNA-Seq Scran
updated 6 days ago by 43k • written 5.5 years ago by ▴ 10
0
votes
0
replies
213
views
create genewise sync file in popoolation
popoolation
updated 6 days ago by 141k • written 6 days ago by • 0
0
votes
0
replies
192
views
miRDeep2: How to get the read counts
mirdeep2
6 days ago by Atul K. • 0
0
votes
0
replies
175
views
SNP calling with ANGSD and ngsLD. How many SNPs?
lcwgs ngsTools ANGSD genomics
5 days ago by DanielEB_fisk ▴ 20
0
votes
0
replies
193
views
Conversion to tree format
PLINK bed Figtree SplitsTree
updated 5 days ago by 43k • written 5 days ago by • 0
0
votes
0
replies
199
views
Lncipedia GTF file error
Proteomics
updated 5 days ago by 43k • written 6 days ago by ▴ 10
0
votes
0
replies
202
views
Copy number variation plot
Copy-number-variation genomics
updated 5 days ago by 43k • written 5 days ago by • 0
0
votes
0
replies
179
views
Chemical structure validation
structure cap validation metabolite
5 days ago by Rodolfo Adrián • 0
0
votes
0
replies
186
views
absolute path for symbolic links in Snakefile
Snakemake
updated 5 days ago by 43k • written 5 days ago by ▴ 60
0
votes
0
replies
186
views
scRNA Cluster frequency
CV PCA scRNA Cluster-Frequency
5 days ago by Nitin • 0
0
votes
0
replies
185
views
agilent microarray gpl data does not have gene symbol column
microarray agilent gpl
updated 5 days ago by 43k • written 5 days ago by • 0
1
vote
0
replies
537
views
The majority of the sequences in Trinity ID do not start from start codons. Can the sequences still be used for primer design and validation?
Primers TRINITY
5 days ago by mathavanbioinfo ▴ 90
0
votes
0
replies
209
views
Using samtools with GCS (google cloud storage) on a docker container seems to give "Protocol Not Supported" error
samtools gcs
4 days ago by abhishekghadge • 0
0
votes
0
replies
131
views
Reparametrization of .str (param penalty > 100) File from CGenFF for Ligand Simulation in GROMACS
Simulation CGenFF Gromacs VMD
4 days ago by Mamatha Y S • 0
0
votes
0
replies
138
views
Bacterial genome alignment with mauve
Bacteria mauve genome
4 days ago by rthapa ▴ 90
0
votes
0
replies
136
views
How to extract the mutations specific to cancer after variant annotation
variant-annotation
updated 3 days ago by 43k • written 4 days ago by • 0
0
votes
0
replies
124
views
CIRIquant: ValueError: file has no sequences defined (mode='rb') - is it SAM/BAM format? Consider opening with check_sq=False
Ciriquant
updated 3 days ago by 8.7k • written 3 days ago by • 0
0
votes
0
replies
76
views
Difficulties getting **the adjacency file** necessary for **aracne2regulon** function.
VIPER MARINA ARACNe
3 days ago by Biostars2200 • 0
0
votes
0
replies
70
views
Correct way of reducing predictive model complexity
lasso glmnet predictvemodeling regression
3 days ago by sativus ▴ 20
0
votes
0
replies
84
views
Trimming best practices for SNP calling
trimming SNP trimmomatic
3 days ago by Enrique • 0
0
votes
0
replies
69
views
Imputation advice
imputation
3 days ago by kl ▴ 10
0
votes
0
replies
77
views
Annotating single cell data automatically
cell annotation single
2 days ago by Gerard • 0
0
votes
0
replies
78
views
How to get somatic variation based on RNA-seq data?
RNA-seq variation somatic
2 days ago by feather-W • 0
0
votes
0
replies
80
views
Help with finding conferences in immuno-informatics/virology
virology conferences immunology
2 days ago by manaswwm ▴ 490
0
votes
0
replies
200
views
traying to make a maf from an already annotated vcf
vcf vcf2maf maf maftools VEP
2 days ago by Javier • 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
154
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
0
replies
72
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
1 day ago by alifafiq1 • 0
0
votes
0
replies
90
views
Merging replicates from Encode project
CHIP-seq encode
1 day ago by Nurken • 0
0
votes
0
replies
81
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
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
0
replies
84
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile scvelo scipy annData numpy
1 day ago by Kash ▴ 110
0
votes
0
replies
92
views
Sequence BLAST in plus/minus and plus/plus
blast CRISPR strand sequencing
23 hours ago by salias • 0
0
votes
0
replies
142
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome PGAP NCBI roary Prokka
19 hours ago by pramach1 ▴ 40
106 results • Page 2 of 3
Recent Votes
Answer: Finding orthologs between genome error
Answer: Finding orthologs between genome error
Answer: Fetch table from clinvar database according to a list of rsid
Comment: Fetch table from clinvar database according to a list of rsid
Comment: Adding CB tag to bam file
Comment: alignment result
Comment: clustalo - align milions of short seq, memory issue
Recent Locations • All
Ramat Gan, just now
France, just now
Belarus, just now
Geneva, 2 minutes ago
Netherlands, 3 minutes ago
Vietnam, 3 minutes ago
Canada, 4 minutes ago
Recent Awards • All
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
Popular Question to Simone ▴ 10
Popular Question to carlopecoraro2 ★ 2.5k
Recent Replies
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…
Comment: Fetch table from clinvar database according to a list of rsid by Pierre Lindenbaum 161k
ah ! and your code doesn't work because clinvar ID is not a rs-ID.
Answer: Fetch table from clinvar database according to a list of rsid by Pierre Lindenbaum 161k
$ cat input.rs rs11203366 rs11203367 rs874881 rs776453694 rs80324279 rs324420 rs112766203 wget -…
Comment: Highest variable features in single cell data by ATpoint 82k
> and these cells are not even in a single cluster. What does this mean? If you run clustering on all cells then every cell is assigned t…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas by Bertalan_Takacs ▴ 90
Yes, I can tell that, but as far as I see it doesn't contain any other information about the genomes, such as if they were representative i…
Answer: Hide positions in alignment with 99% "–" characters to ignore single sequence in by b.contreras.moreira ▴ 170
You can try <https://github.com/inab/trimal>
Comment: To get p-values for the TPM by VITALA • 0
yes i want what rsem does and i did try with prior-enhanced option/pRSEM, but i think pRSEM is for chipseq data
Traffic: 2934 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