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109,155 results • Page
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News:
Talk from Aaron Lun on Orchestrating Single-Cell Analysis With Bioconductor
scrna-seq
updated just now by
Ram
38k • written 19 minutes ago by
ATpoint
70k
0
votes
0
replies
13
views
ORA analysis (over-representation analysis) : different package different padjusted and qvalue
pvalue
ORA
qpvalue
r
1 hour ago by
camillab.
▴ 130
0
votes
2
replies
41
views
Diffbind dba.count doesn't give FRiP score
Diffbind
FRiP
updated 2 hours ago by
Rory Stark
★ 1.7k • written 2 hours ago by
gyspace
• 0
0
votes
1
reply
120
views
Diffbind: how to get raw read counts and normalized read counts
Diffbind
rawcount
updated 2 hours ago by
Rory Stark
★ 1.7k • written 1 day ago by
soda
▴ 40
730
votes
161
replies
108k
views
100 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 15 days ago by
Biostar
1.6k • written 6.3 years ago by
Istvan Albert
97k
2
votes
8
replies
214
views
Align miRNA library (small RNA-seq) without trimming
BOWTIE2
RNA-SEQ
BOWTIE
4 minutes ago by
Paola
▴ 10
2
votes
4
replies
342
views
VCF file generated by Gridss not recognised by VEP
NGS
variant-calling
VEP
Gridss
updated 2 hours ago by
Ryangguk Kim
▴ 90 • written 24 days ago by
Reda
• 0
0
votes
3
replies
97
views
Convert .bam file from version 1.6 to 1.4
bam
samtools
updated 3 hours ago by
ATpoint
70k • written 7 hours ago by
Abhi
• 0
1
vote
2
replies
70
views
ChIPseeker Warning Message
ChIPseeker
just now by
Jen
▴ 40
0
votes
2
replies
86
views
extract gene coordinates and TSS from gene list
r
genomicranges
4 hours ago by
Chironex
▴ 40
0
votes
0
replies
47
views
Use GraphQL to query miltiple rsIDs from GWAS study in Open Targets
OpenTargets
GWAS
GraphQL
7 hours ago by
dzisis1986
▴ 60
2
votes
6
replies
193
views
How to remove unknown batch-batch effects from GEO datasets
batch-effect
GEO
updated 2 hours ago by
Ram
38k • written 9 hours ago by
2317711200
• 0
0
votes
7
replies
292
views
How to get subset of a Seurat object based on metadata?
scRNA-seq
Seurat
3 hours ago by
sunyeping
▴ 80
9
votes
8
replies
343
views
6 follow
Forum:
Any tips in landing a bioinformatic job?
Spain
R
59 minutes ago by
Jorge
▴ 30
1
vote
2
replies
249
views
Extract data from Signac RegionMatrix?
Signac
r
seurat
sc-atac
updated 8 hours ago by
Chironex
▴ 40 • written 6 weeks ago by
andrea.rubiop88
• 0
0
votes
4
replies
229
views
Total No of Genes of GENCODE Release 43
gencode
gene
updated 9 hours ago by
ATpoint
70k • written 1 day ago by
ahmad
• 0
0
votes
1
reply
101
views
How to make "Custom annotation File" for GO analysis using TOPgo
enrichment
GO
analysis
TOPGO
updated 6 hours ago by
Shred
★ 1.1k • written 11 hours ago by
hellokwmin
• 0
0
votes
0
replies
60
views
topGO error: KS elim test
KS
topGO
enrichment-analysis
updated 2 hours ago by
Ram
38k • written 13 hours ago by
Priya Rao
• 0
1
vote
1
reply
131
views
How can I use bcftools mpileup or an alternative to find ALL variants without any probabilistic inference?
Fgbio
UMI
variant-calling
updated 13 hours ago by
cfos4698
▴ 730 • written 1 day ago by
chaco001
▴ 10
0
votes
1
reply
109
views
PTM-aware protein folding / docking
folding
protein
docking
structure
prediction
updated 14 hours ago by
Mensur Dlakic
★ 23k • written 23 hours ago by
LChart
2.2k
0
votes
5
replies
4.1k
views
6 follow
Admixture cv error
Admixture
Structure
CV Error Rates
updated 6.0 years ago by
blair.chr
• 0 • written 7.1 years ago by
s.bourne
• 0
7
votes
2
replies
249
views
What is the NCBI's definition of an "atypical genome"?
NCBI
genome
annotation
updated 19 hours ago by
MirianT_NCBI
▴ 520 • written 1 day ago by
acvill
▴ 290
1
vote
2
replies
134
views
Best way to visualize .paf or .sam alignment to a fasta file
visualization
sam
fasta
paf
alignment
updated 2 hours ago by
colindaven
4.6k • written 20 hours ago by
Mark
• 0
0
votes
0
replies
83
views
Problem when downloading dataset from ArrayExpress
Bioconductor
ArrayExpress
20 hours ago by
cogen859
• 0
0
votes
2
replies
183
views
syntax errors when running part3 all-against-all
oma
updated 21 hours ago by
Adrian Altenhoff
★ 1.0k • written 2 days ago by
Sofia
• 0
0
votes
3
replies
172
views
using CITE-seq data to cluster single cells
clustering
cite-seq
k-means
10x
updated 9 hours ago by
ATpoint
70k • written 21 hours ago by
chi.delta
▴ 40
0
votes
0
replies
73
views
Extract cluster genes
fasta
extract
cluster
21 hours ago by
BATMAN
• 0
1
vote
2
replies
134
views
Analysing the Effect of a Drug on the Morphological Changes of a Cell Type
drug-effect
statistical-analysis
17 hours ago by
E-HR
• 0
0
votes
0
replies
102
views
Job:
Job: Bioinformatics Engineer position at Stanford; part of NIH-funded GREGoR Consortium
hiring
bioinformatics
22 hours ago by
lmeador
• 0
1
vote
3
replies
420
views
Post-Imputation QC Problem
Imputation
22 hours ago by
Jesse
• 0
1
vote
2
replies
127
views
Module color label in WGCNA
labels2colors
WGCNA
21 hours ago by
kivanvan
• 0
3
votes
1
reply
114
views
Why not use ONLY promoter-bound peaks when testing for enrichment in differentially-bound regions?
ChIP-seq
ChIPseeker
GO
updated 22 hours ago by
Ram
38k • written 23 hours ago by
e.r.zakiev
▴ 30
0
votes
0
replies
82
views
Clustering method for CT values of two group
PCA
Clustering
bioconductor
R
1 day ago by
Maria17
▴ 10
1
vote
1
reply
99
views
Integration of RNA seq data aligned to different reference genome versions
scRNA-seq
RNA-seq
updated 23 hours ago by
Ram
38k • written 1 day ago by
susibing
▴ 20
0
votes
0
replies
76
views
UK BioBank HLA imputation
ukbb
hla
imputation
1 day ago by
hla_help
• 0
0
votes
4
replies
181
views
Update MitoZ 3.4 to 3.5
ubuntu
mitoZ
updated 1 day ago by
Ram
38k • written 1 day ago by
manaswiniparija3
▴ 10
0
votes
0
replies
85
views
ABSOLUTE for tumour purity with WES
tumour-purity
ABSOLUTE
WES
updated 1 day ago by
Ram
38k • written 1 day ago by
Cvlind
• 0
1
vote
4
replies
187
views
Suggestion for approaching multiple conditions scRNA-seq
scRNA-seq
1 day ago by
Eisuan
▴ 20
1
vote
1
reply
143
views
Dealing with very large gene-lists in GSEA
R
fgsea
GSEA
updated 1 day ago by
Trivas
▴ 730 • written 1 day ago by
yura.grabovska
▴ 50
0
votes
2
replies
351
views
Which GPU for local Colabfold
GPU
Alphafold
updated 1 day ago by
matt_arnold_bio
• 0 • written 4 months ago by
Arjen Ten Have
▴ 360
0
votes
2
replies
185
views
boxplot issue
DESeq2
Boxplot
updated 9 hours ago by
ATpoint
70k • written 1 day ago by
kalyani
• 0
0
votes
1
reply
135
views
heatmap issue
heatmap
DESeq2
updated 1 day ago by
yura.grabovska
▴ 50 • written 1 day ago by
kalyani
• 0
3
votes
4
replies
366
views
differential gene analysis
DGE
1 day ago by
kalyani
• 0
2
votes
2
replies
154
views
STAR solo set parameters for scrna-seq
solo
STAR
1 day ago by
t.ru
▴ 20
1
vote
3
replies
173
views
merge vcf.gz file
vcf.gz
bcftools
1 day ago by
Mali
• 0
2
votes
4
replies
248
views
GO enrichment analysis
enrichment
analysis
GO
updated 18 hours ago by
Jeremy
▴ 780 • written 1 day ago by
hellokwmin
• 0
6
votes
6
replies
2.5k
views
Sites for Computer Aided Drug Designing
CADD
Simulations
in-silico
Docking
written 8.3 years ago by
ruchikabhat31
▴ 60
0
votes
3
replies
671
views
database on patients treated with CAR T-cell therapies
cancer
written 16 months ago by
yueli7
▴ 240
0
votes
1
reply
131
views
installation of Snapgene tool in Ubuntu
installation
snapgene
Ubuntu
updated 1 day ago by
ATpoint
70k • written 1 day ago by
Fizzah
▴ 20
1
vote
3
replies
175
views
mpileup to sync file
AF
samtools
selection
vcf
popoolation
updated 1 day ago by
Pierre Lindenbaum
153k • written 1 day ago by
qstefano
▴ 20
109,155 results • Page
1 of 2184
Recent Votes
Answer: ChIPseeker Warning Message
Answer: Cell Type Marker Databases?
Cell Type Marker Databases?
Interpreting the output of edgeR table coefficients
Clusterprofiler gseGO and GSEA
Answer: Any tips in landing a bioinformatic job?
Answer: Any tips in landing a bioinformatic job?
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Recent Awards •
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Popular Question
to
camillab.
▴ 130
Popular Question
to
eennadi
▴ 20
Scholar
to
Elisabeth Gasteiger
★ 2.2k
Teacher
to
MirianT_NCBI
▴ 520
Teacher
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Santosh Anand
5.7k
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Bogdan
★ 1.3k
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pavelasquezv
▴ 50
Recent Replies
Comment: ChIPseeker Warning Message
by
Jen
▴ 40
Great. Thank you :)
Comment: Align miRNA library (small RNA-seq) without trimming
by
Paola
▴ 10
Thank you ATpoint for answering For my last attempt with bowtie2, I got it from tutorial for small RNA library. As for align with the ge…
Comment: Align miRNA library (small RNA-seq) without trimming
by
Paola
▴ 10
Hi Trivas Thank you for your answering. I did the cutadapt .But when I checked the quality of my trimmed reads, there is a decreasing o…
Comment: Align miRNA library (small RNA-seq) without trimming
by
Paola
▴ 10
Hi Thank you for your point! But I was reading some articles and other discussions post that make me think about when trimming is really n…
Comment: Any tips in landing a bioinformatic job?
by
Jorge
▴ 30
Do you know where I can find any recruiter that specialize in science placements? Thanks!
Comment: Any tips in landing a bioinformatic job?
by
Jorge
▴ 30
Yeah, I'm from Spain, from Galicia to be precise. The problem with that list is that many of the jobs require a relocation so It's hard whe…
Comment: Any tips in landing a bioinformatic job?
by
Jorge
▴ 30
I'll work around that. In my Github I only have the last project i created. A package to manage health data and to predict patient demands…
Answer: Diffbind dba.count doesn't give FRiP score
by
Rory Stark
★ 1.7k
It would be helpful to know what version of `DiffBind` are you running (output of `sessionInfo()`). There have been some fixes in this area…
Answer: Diffbind: how to get raw read counts and normalized read counts
by
Rory Stark
★ 1.7k
Yes, these are the normalized reads. If you want to get the raw read counts, you can change the reported score and then re-retrieve the …
Answer: Align miRNA library (small RNA-seq) without trimming
by
Buffo
★ 2.0k
I wouldn't say that trimming `is optional prior the alignment depending of the downstream analysis`. Your reads might contain sequencing ad…
Comment: Diffbind dba.count doesn't give FRiP score
by
Ram
38k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: VCF file generated by Gridss not recognised by VEP
by
Ryangguk Kim
▴ 90
Do you need proper annotation of that structural variant or want to just ignore it so that other non-structural variants can be processed?
Comment: If RNA-seq includes miRNA genes then why are there miRNA specific pipelines?
by
Kermit
▴ 80
would you make the same case for lncRNA detected by a generic RNA-seq protocol?
Comment: If RNA-seq includes miRNA genes then why are there miRNA specific pipelines?
by
Kermit
▴ 80
Would you make the same statement about using RNA-Seq library preparation for lncRNA?
Comment: Best way to visualize .paf or .sam alignment to a fasta file
by
colindaven
4.6k
Tablet https://ics.hutton.ac.uk/tablet/ is more of an assembly viewer, but useful as very fast for very deep data.
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