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122,007 results • Page
615 of 2441
Sort: Rank
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Votes
Replies
0
votes
0
replies
621
views
Is it possible to change values to data before vsn applied?
genetic
bio
vsn
R
4.2 years ago by
dxodnd
• 0
0
votes
0
replies
788
views
R is saving empty sheets for several KM plots using RTCGA package
RTCGA
R
updated 2.6 years ago by
Ram
45k • written 4.2 years ago by
rodolfo.peacewalker
▴ 390
1
vote
3
replies
1.8k
views
Extremely high adapter content and low alignment rate in RNAseq
alignment
adapter
RNAseq
updated 4.2 years ago by
swbarnes2
15k • written 4.2 years ago by
grayapply2009
▴ 300
3
votes
2
replies
1.8k
views
Raw counts of scRNA-seq
scRNA-seq
updated 4.2 years ago by
Gordon Smyth
★ 8.3k • written 4.2 years ago by
zizigolu
★ 4.4k
1
vote
3
replies
1.3k
views
Pathway Analysis Interpretation
analysis
kegg
pathway
rna-seq
updated 4.2 years ago by
rodolfo.peacewalker
▴ 390 • written 4.2 years ago by
enh
• 0
0
votes
1
reply
2.1k
views
Generating a dotplot following ragtag scaffolding
ragtag
dotplot
mummerplot
genome
assembly
updated 4.2 years ago by
samuel.a.odonnell
▴ 600 • written 4.2 years ago by
kschach2
• 0
1
vote
1
reply
1.6k
views
MAESTRO returns an error
CIBERSORT
scRNA-seq
MAESTRO
RNA-seq
single-cell
4.2 years ago by
Luna_P
▴ 20
0
votes
2
replies
1.1k
views
How to retrieve a specific version of Araport annotation file?
Arabidopsis
gtf
annotations
4.2 years ago by
Hojn
▴ 30
0
votes
2
replies
3.4k
views
stats file in Mutect2 calling
gatk
updated 4.2 years ago by
aldhairmedico
▴ 70 • written 6.1 years ago by
dentepre
▴ 20
0
votes
0
replies
681
views
The P-value histogram when using the option lfcThreshold > 0
DESeq2
lfcThreshold
4.2 years ago by
haasroni
• 0
0
votes
8
replies
5.2k
views
Poly-G in head of read NovaSeq
sequencing
updated 4.2 years ago by
Jianheng Liu (Fox)
• 0 • written 5.2 years ago by
godth13teen
▴ 100
5
votes
7
replies
2.0k
views
What does "viewpoint" mean?
definition
4.2 years ago by
ccc
▴ 30
0
votes
0
replies
786
views
error related to MetaXcan
PrediXcan
TWAS
MetaXcan
SNP
4.2 years ago by
rheab1230
▴ 150
0
votes
3
replies
1.7k
views
Comparison of two populations of scRNAseq cells
scRNA-seq
RNA-seq
compare
single-cell
updated 4.2 years ago by
jared.andrews07
★ 19k • written 4.2 years ago by
bioinf.questions
• 0
2
votes
1
reply
800
views
Handling RNA-seq samples from the same individual in DEseq2 analysis
DEseq2
RNA-seq
updated 4.2 years ago by
jared.andrews07
★ 19k • written 4.2 years ago by
gspirito
▴ 10
4
votes
1
reply
1.1k
views
Covariates didn't change GWAS too much?
Covariates
GWAS
MixedLinearModel
MLM
LMM
updated 4.2 years ago by
Sam
★ 4.8k • written 4.2 years ago by
okiedokie1208
▴ 40
0
votes
0
replies
1.8k
views
Job:
CDC Bioinformatics position
CDC
bash
python
git
updated 2.6 years ago by
Ram
45k • written 4.2 years ago by
Alison Halpin
• 0
2
votes
0
replies
839
views
Job:
Bioinformatics Positions at the Penn Epigenetics Institute
imaging
UPENN
genomics
epigenetics
updated 2.6 years ago by
Ram
45k • written 4.2 years ago by
vahedilab.jobs
▴ 40
1
vote
5
replies
2.2k
views
Preparing CHASMplus database for annotation
ANNOVAR
CHASM
CHASMplus
annotation
updated 4.2 years ago by
Collin
▴ 1000 • written 4.3 years ago by
Zahra
▴ 110
0
votes
1
reply
1.2k
views
Average duplicate read rate in a 'typical' RNA-seq experiment
RNA-seq
updated 4.2 years ago by
ATpoint
89k • written 4.2 years ago by
Ld_60
▴ 80
0
votes
4
replies
1.4k
views
Problem facing for retrieving Phalanx_id from geo data set in R
Phalanx_id
GEO
dataset
4.2 years ago by
fahim
▴ 20
0
votes
0
replies
1.4k
views
Calculate significance (P values) of Fst values
fst
p-value
genotype
updated 2.8 years ago by
Ram
45k • written 4.2 years ago by
doodle
▴ 30
0
votes
5
replies
2.0k
views
Is it possible to remove overrepresented sequence from trimgalore?
RNA-SEQ
updated 4.2 years ago by
Lila M
★ 1.3k • written 4.2 years ago by
yosapol.harn
• 0
0
votes
2
replies
1.3k
views
Shannon Diversity at the gene level
Shannon
Diversity
Alpha
updated 4.2 years ago by
Joe
22k • written 4.2 years ago by
Bio_Crap
• 0
2
votes
3
replies
1.3k
views
Contigs and scaffold in reference genome
BWA
Ensembl
Genome
Reference
HiSat
NCBI
updated 4.2 years ago by
GenoMax
154k • written 4.2 years ago by
Arindam Ghosh
▴ 550
0
votes
2
replies
1.6k
views
Identify most and least abundant allele (nMAJ and nMIN) for pooled heterozygosity (hp) analysis from vcf file
selection
wgs
vcf
gatk
updated 4.0 years ago by
kk.mahsa
▴ 150 • written 4.3 years ago by
tothepoint
▴ 940
1
vote
1
reply
1.3k
views
The P-values with lfcShrink and ashr shrinkage estimator
DESeq2
ashr
updated 4.2 years ago by
ATpoint
89k • written 4.2 years ago by
haasroni
• 0
0
votes
1
reply
807
views
Statistical analysis, such as SNPs association, of pooled-seq data
Pooled
NGS
SNP
GWAS
updated 4.2 years ago by
GenomeXP
• 0 • written 4.3 years ago by
TH Yeh
• 0
1
vote
1
reply
1.0k
views
What is the meaning of mRNA_start_NF for a lncRNA transcript?
annotation
gencode
genome
updated 4.2 years ago by
Emily
24k • written 4.2 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
4.2 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 4.2 years ago by
Patrick
▴ 60 • written 13.2 years ago by
Whetting
★ 1.6k
3
votes
2
replies
3.3k
views
Where do I share a single-cell dataset?
store
share
data
single-cell
updated 4.2 years ago by
Nitin Narwade
★ 1.7k • written 4.2 years ago by
Lluís R.
★ 1.2k
0
votes
0
replies
527
views
Cell metabolic activity assay - Dose Response Analysis
Analysis
R
IC50
EC50
DoseResponse
updated 4.2 years ago by
Michael
56k • written 4.2 years ago by
GiuliaAC
▴ 20
1
vote
4
replies
3.2k
views
Batch correction proteomics dataset
proteomics
correction
missing
Batch
values
4.2 years ago by
Santosh
▴ 10
0
votes
7
replies
2.3k
views
Bowtie2 genome indexes incomplete
index
bowtie2
updated 4.2 years ago by
GenoMax
154k • written 4.3 years ago by
Elisa
• 0
0
votes
2
replies
1.2k
views
Estimating gene expression from eQTL composition
eQTL
gene
expression
updated 4.2 years ago by
Carambakaracho
★ 3.3k • written 4.2 years ago by
lefthandgergo
▴ 10
1
vote
2
replies
978
views
Combining two vcf files
Vcf
GWAS
4.2 years ago by
raalsuwaidi
▴ 110
0
votes
0
replies
737
views
Conversion of Metacyc Ids to BiGG ids in metabolic model
metabolic
BiGG
MetaCyc
model
Database
RAVEN
4.2 years ago by
Aini
• 0
2
votes
1
reply
1.0k
views
What is the logical operator for plink2 --extract-if-info?
plink2
updated 4.2 years ago by
chrchang523
11k • written 4.2 years ago by
YL
▴ 10
2
votes
4
replies
1.4k
views
What does "multiplex" mean?
definition
4.2 years ago by
ccc
▴ 30
0
votes
0
replies
878
views
High values of Chao1 index
INDEX
MOTHOUR
DIVERSITY
CHAO1
ALPHA
4.2 years ago by
marc.acfz
• 0
2
votes
2
replies
1.3k
views
Provide interactive result of sleuth_live online?
RNA-SEQ
gene
expression
sleuth
4.2 years ago by
seb.boegel
• 0
0
votes
0
replies
626
views
Estimating the effective population size
ne
SNeP
VCF
4.2 years ago by
PKW
▴ 110
0
votes
4
replies
2.0k
views
STAR errors out during alignment
RNA-seq
STAR
alloc
4.2 years ago by
Ram
45k
1
vote
1
reply
865
views
3' DGE (3'-digital gene expression) for knockdown analysis
3-prime-DGE
knockdown
updated 2.8 years ago by
Ram
45k • written 4.2 years ago by
upendrakumar.devisetty
▴ 400
2
votes
6
replies
2.8k
views
How install DESeq2, gplots, RColorBrewer in R?
analysis
RNA-Seq
updated 4.2 years ago by
Ram
45k • written 4.2 years ago by
Bioinformatics1
▴ 10
0
votes
0
replies
674
views
How to make a genomic content table that has species as the rows and functions (pathways or genes) on the column?
metagenomics
4.2 years ago by
dpc
▴ 250
0
votes
3
replies
1.3k
views
what is the best R package/function to perform an Equality of variance F-test on TMM log2 gene expression values
gene-expression
F-test
equality-of-variance
updated 4.2 years ago by
ATpoint
89k • written 4.2 years ago by
RNAseqer
▴ 280
0
votes
6
replies
2.9k
views
Problem for retrieving gene symbol from ID_REF
GEO
dataset
updated 4.2 years ago by
GenoMax
154k • written 4.2 years ago by
fahim
▴ 20
0
votes
0
replies
772
views
BLASTP - parameters for soft filtering and smith-waterman alignment
seg
soft-filtering
blastp
updated 4.2 years ago by
Ram
45k • written 4.2 years ago by
timothy.kirkwood
▴ 140
122,007 results • Page
615 of 2441
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Comment: GUI commercial software for 10x single cell gene expression analysis
Answer: GUI commercial software for 10x single cell gene expression analysis
Answer: GUI commercial software for 10x single cell gene expression analysis
Answer: GUI commercial software for 10x single cell gene expression analysis
GUI commercial software for 10x single cell gene expression analysis
Answer: FACS quality control based on size and doublet detection in scRNA-seq
Answer: FACS quality control based on size and doublet detection in scRNA-seq
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Comment: GUI commercial software for 10x single cell gene expression analysis
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A comment on: "*Wonky analysis is possible even with open-source R libraries.*" True - and arguably, the risk of a wonky analysis is actua…
Comment: GUI commercial software for 10x single cell gene expression analysis
by
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`Trailmaker` likely only supports Parse's evercode data. <br> `BioTuring` does not appear to have published pricing. <br> `Rosalind` appear…
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Wow, thats too long. How much RAM does your machine have, it is likely swapping
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For a 200-SNP panel at your sample throughput, I would recommend an amplicon-based targeted sequencing approach. The workflow involves des…
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Your proposed workflow is indeed sound, as applying DESeq2 to KO-counts is perfectly valid; its underlying negative binomial model is metho…
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The massive difference has been reproducible across the 3 biological replicates and is in line with what we would expect in terms of the bi…
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My initial concern is the ~15-fold difference (450 vs 7500) between called peaks in the two different cell line conditions. This suggests t…
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