Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : this week
all time
today
this week
this month
this year
176 results • Page
3 of 4
Sort: replies
Rank
Views
Votes
Replies
0
votes
2
replies
234
views
Inquiry about deseq2 transformation
RNA-seq
deseq2
5 days ago by
Chen
• 0
3
votes
1
reply
332
views
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
limma
updated 6 days ago by
dariober
14k • written 7 days ago by
Holly
▴ 30
0
votes
1
reply
151
views
Post-imputation QC for input into GWAS analyses
gwas
prs
updated 6 days ago by
LauferVA
4.2k • written 6 days ago by
graeme.thorn
▴ 100
1
vote
1
reply
152
views
sci-RNA-seq
Seurat
sci-RNA-seq
updated 6 days ago by
Ram
43k • written 7 days ago by
kilcdincer
▴ 10
0
votes
1
reply
137
views
What is the bin size for Bamcompare?
chip-seq
deeptools
bamcompare
updated 6 days ago by
Ram
43k • written 7 days ago by
Emily
▴ 20
0
votes
1
reply
153
views
Polish a large genome with Pilon
Pilon
Pacbio
Polish
Illumina
6 days ago by
sansan_96
▴ 90
0
votes
1
reply
143
views
Wrong ZYGOSITY by ensembl vep on DeepVariant vcf file
annotation
vcf
vep
zygosity
deepvariant
5 days ago by
asalimih
▴ 60
1
vote
1
reply
253
views
Calculate allelic frequency from VEP output vcf file
VEP
variant
5 days ago by
ramiro.barrantes
• 0
0
votes
1
reply
595
views
scRNAseq quality control weird double curve in nFeature vs nCount plot
scRNA-seq
QC
single
cell
BDRhapsody
analysis
updated 5 days ago by
valdirbarth
▴ 20 • written 12 months ago by
Salomé
• 0
0
votes
1
reply
182
views
What's next after GATK variant calling pipeline?
GATK
pipeline
figures
DNA-seq
updated 5 days ago by
Michael
54k • written 5 days ago by
mgranada3
▴ 30
0
votes
1
reply
182
views
perseus software (version 1.5.5)
preseus
mass
spectrometry
data
updated 5 days ago by
DGTool
▴ 20 • written 6 days ago by
iqra
• 0
0
votes
1
reply
160
views
Seurat v5 and how to correctly integrate across multiple experiments
Seurat
scRNA
R
updated 5 days ago by
Papyrus
★ 2.9k • written 6 days ago by
yura.grabovska
▴ 90
0
votes
1
reply
159
views
Difference in number of reads when using duplex and simplex base calling with Dorado
base
calling
nanopore
simplex
dorado
duplex
updated 4 days ago by
GenoMax
142k • written 6 days ago by
Lélé
▴ 10
1
vote
1
reply
223
views
mitochondrial genome assembly pipeline
mammals
mitochondrial-genome
updated 4 days ago by
Ram
43k • written 5 days ago by
m90
▴ 30
1
vote
1
reply
193
views
Help with VG Toolkit: VCF Output is Empty
vg
updated 4 days ago by
Jordan M Eizenga
▴ 460 • written 15 days ago by
sarumonsus
▴ 10
1
vote
1
reply
203
views
Tool:
Collect dispersed executable files and run them by using bingo.
bingo
updated 4 days ago by
Ram
43k • written 5 days ago by
dwpeng
▴ 10
1
vote
1
reply
205
views
API kegg - IndexError: list index out of range
kegg
API
updated 4 days ago by
Nyksubuz
▴ 20 • written 5 days ago by
mirwa.zidi93
• 0
0
votes
1
reply
162
views
Add line under stat test
stats
R
updated 4 days ago by
Nyksubuz
▴ 20 • written 5 days ago by
Ghada
• 0
0
votes
1
reply
447
views
solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* error: could not open input file /geneInfo.tab #2142
STAR
updated 4 days ago by
GenoMax
142k • written 4 days ago by
huxiangyulove
• 0
0
votes
1
reply
186
views
Broad and Narrow peaks
ATAC
ChIP
seq
updated 3 days ago by
ATpoint
82k • written 3 days ago by
Jacek
▴ 20
1
vote
1
reply
204
views
constructing pangenome through psvcp
psvcp
pangenome
2 days ago by
analyst
▴ 50
1
vote
1
reply
343
views
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
CIBERSORTx
cibersort
error
RNA-Seq
deconvolution
updated 2 days ago by
nguyenn6
• 0 • written 3 months ago by
star
▴ 10
2
votes
1
reply
254
views
RNAseq coverage vs depth for transcript isoform expression?
RNAseq
updated 2 days ago by
Gordon Smyth
★ 7.2k • written 3 days ago by
marineandriot
• 0
0
votes
1
reply
165
views
geom_bar issue in ggplot2 with xlim()
geom_bar
ggplot2
statistics
R
updated 1 day ago by
ATpoint
82k • written 1 day ago by
rj.rezwan
• 0
0
votes
1
reply
117
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
updated 1 day ago by
ATpoint
82k • written 1 day ago by
Pegasus
▴ 100
0
votes
1
reply
133
views
PCA Visualization error in R - arguments imply differing number of rows
SNPs
PCA
GBS
LINUX
r
updated 1 day ago by
zx8754
11k • written 1 day ago by
Ali
• 0
0
votes
1
reply
121
views
GO analysis: Indicate genes corresponding to the pathway
GeneOntoloy
GO
R
updated 1 day ago by
marco.barr
▴ 130 • written 1 day ago by
sooni
▴ 20
0
votes
1
reply
91
views
How to hide label in layout file of MCscan (python version)
MCscan
updated 1 day ago by
GenoMax
142k • written 1 day ago by
jinyi
• 0
0
votes
1
reply
589
views
Illumina methylation EPIC V2 array
ewas
methylation
enrichment
missMethyl
EPIC
updated 1 day ago by
fu_entomology
▴ 40 • written 8 months ago by
juliviglino
• 0
1
vote
1
reply
91
views
Generating Group/Cluster Lists from fastq files
Sequencing
RNA-seq
DNA-Seq
updated 22 hours ago by
GenoMax
142k • written 22 hours ago by
niruf
• 0
0
votes
1
reply
78
views
Nextflow docker: Error response from daemon
sarek
gatk4
docker
nextflow
updated 7 hours ago by
Pierre Lindenbaum
161k • written 7 hours ago by
Peter Chung
▴ 200
1
vote
1
reply
686
views
Herald:
The Biostar Herald for Monday, November 01, 2021
herald
written 2.6 years ago by
Biostar
2.8k
0
votes
1
reply
97
views
vcf phasing
beagle
WhatsHap
phasing
updated 2 hours ago by
WouterDeCoster
47k • written 23 hours ago by
safeassli
▴ 10
0
votes
1
reply
73
views
CreateSeuratObject taking very long
seurat
updated 1 hour ago by
Nitin Narwade
★ 1.6k • written 11 hours ago by
eae6d2e7
• 0
0
votes
1
reply
14
views
DRAGEN gVCF files and joint calling GATK-GenomicsDB
DRAGEN
GenomicsDB
updated just now by
DBScan
▴ 300 • written 51 minutes ago by
brunomiwa
• 0
0
votes
0
replies
77
views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
Seurat
single-cell
scRNA-seq
updated 21 hours ago by
Ram
43k • written 1 day ago by
ev97
▴ 20
0
votes
0
replies
102
views
Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell
communication
ligand-receptor
self-regulation
1 day ago by
DGTool
▴ 20
2
votes
0
replies
187
views
Tool:
Sequence alignment on split read event such as inversion, duplication and complex nested events.
minimap
alignment
NGMLR
2 days ago by
micah
▴ 30
0
votes
0
replies
136
views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
R
updated 2 days ago by
Pierre Lindenbaum
161k • written 2 days ago by
Mohamed Samir
▴ 20
0
votes
0
replies
144
views
Tera-scale metagenomic coassembly tool
co-assembly
Metagenomics
3 days ago by
Moinuddin
• 0
0
votes
0
replies
144
views
How can i use ESM-1v ?
VEP
ESM-1v
3 days ago by
Meto
• 0
0
votes
0
replies
156
views
Cell type annotation mixed with other type cells
cell
annotation.
updated 3 days ago by
GenoMax
142k • written 3 days ago by
Long
• 0
0
votes
0
replies
69
views
News:
Online course: Network analysis in Systems Biology with R/Bioconductor
Bioconductor
Systems-Biology
Network-Analysis
R
updated 18 hours ago by
Ram
43k • written 22 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
135
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated 18 hours ago by
Ram
43k • written 1 day ago by
JorgeVallejo
▴ 20
0
votes
0
replies
117
views
problems in installing rDock
rDock
updated 18 hours ago by
Ram
43k • written 2 days ago by
Rodolfo Adrián
• 0
0
votes
0
replies
148
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
3 days ago by
kilcdincer
▴ 10
0
votes
0
replies
163
views
genomic region of transcription factor
search
HOMER
motif
3 days ago by
qudrat.nii
▴ 10
0
votes
0
replies
148
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 4 days ago by
GenoMax
142k • written 4 days ago by
yura.grabovska
▴ 90
0
votes
0
replies
135
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
4 days ago by
Varsha
• 0
0
votes
0
replies
56
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
12 hours ago by
Christopher
• 0
176 results • Page
3 of 4
Recent Votes
How Do I Draw A Heatmap In R With Both A Color Key And Multiple Color Side Bars?
Comment: Practical Haplotype Graph v2 not finding correct paths
A: How To Convert List Of Entrez Ids Into Gene Name
How To Convert List Of Entrez Ids Into Gene Name
A: RSeQC Output from infer_experiment.py - what does it mean?
A: findOverlaps function in R
Comment: What marks a De-Novo Genome assembly as FAILED?
Recent Locations •
All
Greece,
just now
Hong Kong,
1 minute ago
Portugal,
1 minute ago
Belgium, Brussels,
2 minutes ago
Italy,
2 minutes ago
India,
2 minutes ago
United States,
3 minutes ago
Recent Awards •
All
Popular Question
to
applepie
• 0
Popular Question
to
Peter Chung
▴ 200
Popular Question
to
ev97
▴ 20
Popular Question
to
Lluís R.
★ 1.2k
Popular Question
to
Gabriel R.
★ 2.9k
Scholar
to
diqixiaoyaoer
▴ 20
Centurion
to
marco.barr
▴ 130
Recent Replies
Comment: DRAGEN gVCF files and joint calling GATK-GenomicsDB
by
DBScan
▴ 300
I think I did it once, but why would you use GATK with DRAGEN gVCF files? If you have a DRAGEN, the iterative gVCF Genotyper does a much fa…
Answer: Practical Haplotype Graph v2 not finding correct paths
by
beantkapoor16
▴ 10
So, I just tested it and it's performing much better now. Most of the haplotype paths are coming from the expected haplotypes (australasica…
Comment: Kraken2 Custom Database non-deterministic results
by
Bjorn
• 0
Thank you!
Comment: Generating a Bed file from a Fasta file
by
Pierre Lindenbaum
161k
there is not enough information. you have to show us the command you used, a snapshot of your fasta...
Comment: Practical Haplotype Graph v2 not finding correct paths
by
beantkapoor16
▴ 10
That's great. I will test it and let you know how it goes. Thank you.
Comment: Generating a Bed file from a Fasta file
by
pirku
• 0
I tried running BLAT, but the output looks like this. Seems like none of the sequences were mapped/aligned match mis- rep. N's Q gap…
Comment: Where to find old version of GATK best practice
by
GenoMax
142k
You could try and look up a snapshot of the page(s) - https://web.archive.org/ Which specific best practice are you referring to? https:/…
Comment: Generating a Bed file from a Fasta file
by
Pierre Lindenbaum
161k
you could run blast or any other aligner to get the coordinate(s) of your fasta on a reference genome.
Answer: Running STRUCTURE from command line
by
Arthur
• 0
If it cans help, I got the same error message : There were errors in the input file (listed above). According to "mainparams" the inp…
Comment: CreateSeuratObject taking very long
by
Nitin Narwade
★ 1.6k
I am not sure whether it will speedup the conversion but you can give it a try. convert your dataframe into a sparse matrix before creatin…
Comment: Practical Haplotype Graph v2 not finding correct paths
by
pjb39
▴ 220
The timing for your question is excellent. The fix was released yesterday.
Comment: vcf phasing
by
WouterDeCoster
47k
> I observed that it doesn't phase genotypes labeled as 0/0 How could such a genotype even be phased?
Comment: Super ehancers
by
Oburah
• 0
Well-noted however just wondering what you me by GFF being shorter. Thank you![See the screeshot snap of the gff file][1] [1]: /media/i…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴ 50
I know illumina will only give me high-quality contigs. the samples which are to be sequenced with Long_Short read sequence will be used as…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴ 50
Hi, Thank you for a detailed responce. Let me add some more informations. Long-Read is ~75X coverage. Short-Read is ~100X coverage. **For…
Traffic: 3272 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