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122,200 results • Page
619 of 2444
Sort: Rank
Rank
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Votes
Replies
4
votes
6
replies
2.1k
views
Single-End to reduce cost for Differential Expression Analysis ?
expression
single-end
differential
analysis
ngs
deg
4.4 years ago by
Evan
▴ 250
0
votes
0
replies
747
views
Job:
ELIXIR-UK FAIR Data Stewardship Training Fellowship
Fellowship
4.4 years ago by
Hannah
• 0
0
votes
0
replies
1.1k
views
minimap2 Nanopore direct-RNA mapping
rna
minimap2
nanopore
4.4 years ago by
Gregor Rot
▴ 550
4
votes
6
replies
5.1k
views
How to download NCBI fastq data to local machine where access type is "Use Cloud Data Delivery"
delivery
NCBI
cloud
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
daewowo
▴ 80
0
votes
2
replies
1.2k
views
VCF file - If format is GT:PL what does 1:161, 0 mean for GT column
bcftools
vcf
4.4 years ago by
Linda
▴ 80
0
votes
0
replies
757
views
Best way of visualising genetic variation for publication in a gene with many exons
graphs
snv
lollipop
snp
Visualisation
4.4 years ago by
tacrolimus
▴ 150
0
votes
0
replies
748
views
How to simulate a null distribution of paralog ages without ancient WGDs to use in K-S goodness-of-fit test
WGD
distributions
plots
age
KS
gene
4.4 years ago by
Emily Wasson
▴ 30
2
votes
2
replies
1.1k
views
What are DNA-related genes?
gen
updated 4.4 years ago by
Zhilong Jia
★ 2.2k • written 4.5 years ago by
Shabnam.yazdanpanah1998
• 0
0
votes
0
replies
665
views
SPARQL query help
genes
SPARQL
R
4.4 years ago by
flalom
• 0
0
votes
1
reply
902
views
P-value calculation for DNA motifs
python
Genomics
DNA
R
updated 4.4 years ago by
Mensur Dlakic
★ 30k • written 4.4 years ago by
siu
▴ 160
9
votes
6
replies
2.5k
views
Genotype meaning
genotype
BL21
4.4 years ago by
A_heath
▴ 180
3
votes
7
replies
13k
views
understanding log2fold change of 0.31 and -0.25
rnaseq
log2FC
4.4 years ago by
arshad1292
▴ 110
0
votes
6
replies
2.5k
views
How to get genes list from goana function in R
R
4.4 years ago by
smrutimayipanda
▴ 20
0
votes
0
replies
759
views
Measuring pairwise distances between pockets in structural alignment
biopython
protein
alignment
distance
pairwise
4.4 years ago by
Jonathan Lefebre
▴ 70
0
votes
2
replies
1.0k
views
No support values on ASTRAL when I group the different specimens into species groups
multi-species
ASTRAL
ILS
coalescent
model
4.4 years ago by
Konstantinos
• 0
0
votes
0
replies
651
views
If a gene has geater number of Transcription Factor Binding Sites ?
TFBS
Gene
Transcription
sites
binding
regulation
4.4 years ago by
iqra
• 0
2
votes
5
replies
3.1k
views
Using the same cutoff on peak calling?
macs2
cutoff
updated 4.4 years ago by
Lila M
★ 1.3k • written 4.4 years ago by
babanski
▴ 20
0
votes
0
replies
658
views
Is it possible to change values to data before vsn applied?
genetic
bio
vsn
R
4.4 years ago by
dxodnd
• 0
0
votes
0
replies
824
views
R is saving empty sheets for several KM plots using RTCGA package
RTCGA
R
updated 2.7 years ago by
Ram
45k • written 4.4 years ago by
rodolfo.peacewalker
▴ 390
1
vote
3
replies
1.9k
views
Extremely high adapter content and low alignment rate in RNAseq
alignment
adapter
RNAseq
updated 4.4 years ago by
swbarnes2
15k • written 4.4 years ago by
grayapply2009
▴ 300
3
votes
2
replies
1.9k
views
Raw counts of scRNA-seq
scRNA-seq
updated 4.4 years ago by
Gordon Smyth
★ 8.6k • written 4.4 years ago by
zizigolu
★ 4.4k
1
vote
3
replies
1.4k
views
Pathway Analysis Interpretation
analysis
kegg
pathway
rna-seq
updated 4.4 years ago by
rodolfo.peacewalker
▴ 390 • written 4.4 years ago by
enh
• 0
0
votes
1
reply
2.2k
views
Generating a dotplot following ragtag scaffolding
ragtag
dotplot
mummerplot
genome
assembly
updated 4.4 years ago by
samuel.a.odonnell
▴ 640 • written 4.4 years ago by
kschach2
• 0
1
vote
1
reply
1.6k
views
MAESTRO returns an error
CIBERSORT
scRNA-seq
MAESTRO
RNA-seq
single-cell
4.4 years ago by
Luna_P
▴ 20
0
votes
2
replies
1.2k
views
How to retrieve a specific version of Araport annotation file?
Arabidopsis
gtf
annotations
4.4 years ago by
Hojn
▴ 30
0
votes
2
replies
3.5k
views
stats file in Mutect2 calling
gatk
updated 4.4 years ago by
aldhairmedico
▴ 70 • written 6.2 years ago by
dentepre
▴ 20
0
votes
0
replies
712
views
The P-value histogram when using the option lfcThreshold > 0
DESeq2
lfcThreshold
4.4 years ago by
haasroni
• 0
0
votes
8
replies
5.5k
views
Poly-G in head of read NovaSeq
sequencing
updated 4.4 years ago by
Jianheng Liu (Fox)
• 0 • written 5.4 years ago by
godth13teen
▴ 100
5
votes
7
replies
2.1k
views
What does "viewpoint" mean?
definition
4.4 years ago by
ccc
▴ 30
0
votes
0
replies
820
views
error related to MetaXcan
PrediXcan
TWAS
MetaXcan
SNP
4.4 years ago by
rheab1230
▴ 150
0
votes
3
replies
1.8k
views
Comparison of two populations of scRNAseq cells
scRNA-seq
RNA-seq
compare
single-cell
updated 4.4 years ago by
jared.andrews07
★ 19k • written 4.4 years ago by
bioinf.questions
• 0
2
votes
1
reply
848
views
Handling RNA-seq samples from the same individual in DEseq2 analysis
DEseq2
RNA-seq
updated 4.4 years ago by
jared.andrews07
★ 19k • written 4.4 years ago by
gspirito
▴ 10
4
votes
1
reply
1.2k
views
Covariates didn't change GWAS too much?
Covariates
GWAS
MixedLinearModel
MLM
LMM
updated 4.4 years ago by
Sam
★ 4.8k • written 4.4 years ago by
okiedokie1208
▴ 40
0
votes
0
replies
1.8k
views
Job:
CDC Bioinformatics position
CDC
bash
python
git
updated 2.7 years ago by
Ram
45k • written 4.4 years ago by
Alison Halpin
• 0
2
votes
0
replies
890
views
Job:
Bioinformatics Positions at the Penn Epigenetics Institute
imaging
UPENN
genomics
epigenetics
updated 2.7 years ago by
Ram
45k • written 4.4 years ago by
vahedilab.jobs
▴ 40
1
vote
5
replies
2.3k
views
Preparing CHASMplus database for annotation
ANNOVAR
CHASM
CHASMplus
annotation
updated 4.4 years ago by
Collin
▴ 1000 • written 4.4 years ago by
Zahra
▴ 110
0
votes
1
reply
1.3k
views
Average duplicate read rate in a 'typical' RNA-seq experiment
RNA-seq
updated 4.4 years ago by
ATpoint
90k • written 4.4 years ago by
Ld_60
▴ 80
0
votes
4
replies
1.5k
views
Problem facing for retrieving Phalanx_id from geo data set in R
Phalanx_id
GEO
dataset
4.4 years ago by
fahim
▴ 20
0
votes
0
replies
1.4k
views
Calculate significance (P values) of Fst values
fst
p-value
genotype
updated 2.9 years ago by
Ram
45k • written 4.4 years ago by
doodle
▴ 30
0
votes
5
replies
2.1k
views
Is it possible to remove overrepresented sequence from trimgalore?
RNA-SEQ
updated 4.4 years ago by
Lila M
★ 1.3k • written 4.4 years ago by
yosapol.harn
• 0
0
votes
2
replies
1.3k
views
Shannon Diversity at the gene level
Shannon
Diversity
Alpha
updated 4.4 years ago by
Joe
22k • written 4.4 years ago by
Bio_Crap
• 0
2
votes
3
replies
1.4k
views
Contigs and scaffold in reference genome
BWA
Ensembl
Genome
Reference
HiSat
NCBI
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
Arindam Ghosh
▴ 550
0
votes
2
replies
1.7k
views
Identify most and least abundant allele (nMAJ and nMIN) for pooled heterozygosity (hp) analysis from vcf file
selection
wgs
vcf
gatk
updated 4.1 years ago by
kk.mahsa
▴ 150 • written 4.4 years ago by
tothepoint
▴ 940
1
vote
1
reply
1.3k
views
The P-values with lfcShrink and ashr shrinkage estimator
DESeq2
ashr
updated 4.4 years ago by
ATpoint
90k • written 4.4 years ago by
haasroni
• 0
0
votes
1
reply
847
views
Statistical analysis, such as SNPs association, of pooled-seq data
Pooled
NGS
SNP
GWAS
updated 4.4 years ago by
GenomeXP
• 0 • written 4.4 years ago by
TH Yeh
• 0
1
vote
1
reply
1.1k
views
What is the meaning of mRNA_start_NF for a lncRNA transcript?
annotation
gencode
genome
updated 4.4 years ago by
Emily
24k • written 4.4 years ago by
zmyperson
• 0
0
votes
0
replies
1.9k
views
The memory is not enough when run cellranger to align the fq using the two parameters --localcores and --localmem
cellranger
10x
4.4 years ago by
whaiyu06
▴ 80
13
votes
8
replies
19k
views
7 follow
Create Vcf File From A Multiple Sequence Alignments
alignment
vcf
variant
snp
updated 4.4 years ago by
Patrick
▴ 60 • written 13.4 years ago by
Whetting
★ 1.6k
3
votes
2
replies
3.5k
views
Where do I share a single-cell dataset?
store
share
data
single-cell
updated 4.4 years ago by
Nitin Narwade
★ 1.7k • written 4.4 years ago by
Lluís R.
★ 1.2k
0
votes
0
replies
568
views
Cell metabolic activity assay - Dose Response Analysis
Analysis
R
IC50
EC50
DoseResponse
updated 4.4 years ago by
Michael
56k • written 4.4 years ago by
GiuliaAC
▴ 20
122,200 results • Page
619 of 2444
Recent Votes
strong appearing variant not found by haplotypecaller in -ERC mode and deepvariant but with haplotypecaller in normal mode
Answer: How can I easily remove overlapping transcripts, keeping only longest transcript
Answer: Log2 transformation is well used, but is there a good paper that can be used as
Answer: Flatten a GTF
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Comment: ID unifiying across different datasets
by
zizigolu
★ 4.4k
Thanks a lot to be helpful I’m trying to build a complete `UniProtID` to `GeneSymbol` lookup table and I’m running into a wall. I’ve alrea…
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
thomas.heigl.ibk
▴ 20
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
▴ 20
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
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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
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166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
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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
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Thank you for your reply! Unfortunately, despite running YAHS with `--no-contig-ec`, the QV value of the resulting FASTA file did not impro…
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Hi Kevin, Thanks for the detailed explanation. Due to the characteristics of the datasets, we initially used very lenient quality control…
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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 …
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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…
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★ 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
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yura.grabovska
▴ 890
Crosspost from related question: https://www.biostars.org/p/9616466/#9616534 ``` ##Using R, illuminaio from Bioconductor library(…
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