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 : all time
all time
today
this week
this month
this year
121,406 results • Page
1 of 2429
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
25
views
Knowledge Graph for AI
KnowledgeGraph
biotech
AI
SPOKE
Bioinformatician
2 hours ago by
Cornelio
• 0
1
vote
2
replies
771
views
How to convert from .spec to .bam?
bam
file-formatting
spec
updated 4 hours ago by
Daniel Lai
• 0 • written 4.7 years ago by
gmora
▴ 30
0
votes
1
reply
58
views
Insert size is zero
rna-seq
fastp
insert
size
updated 3 hours ago by
GenoMax
152k • written 4 hours ago by
SpliceAndScript
• 0
840
votes
170
replies
180k
views
112 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 7 weeks ago by
Biostar
3.6k • written 8.5 years ago by
Istvan Albert
102k
0
votes
1
reply
105
views
Should matched samples (not paired) be included in the DESeq2 design model?
edgeR
limma
DESeq2
updated 9 hours ago by
i.sudbery
21k • written 13 hours ago by
marieke
• 0
0
votes
3
replies
121
views
Trajectory Analysis scRNA-seq with one cell type and two developmental stages
cellrank
palantir
pseudotime-trajectory-analysis
scrna-seq
trajectory-analysis
updated 1 hour ago by
Bastien Hervé
6.4k • written 13 hours ago by
npont
▴ 10
0
votes
1
reply
453
views
How to run trajectory analysis with only one cell type using palantir?
palantir
scanpy
updated 14 hours ago by
npont
▴ 10 • written 11 months ago by
bioinfo
▴ 160
0
votes
0
replies
52
views
should I remove the transcripts from annotate peak region in ATAC-seq
ATAC-seq
14 hours ago by
QX
▴ 70
2
votes
2
replies
114
views
Trouble Using GEO Files with Seurat
seurat
GEO
scRNA
updated 5 hours ago by
1769mkc
★ 1.3k • written 19 hours ago by
Jamie
• 0
3
votes
2
replies
151
views
DESeq2 LRT test with multifactorial design
test
design
multifactorial
LRT
13 hours ago by
lessismore
★ 1.4k
1
vote
0
replies
276
views
Tool:
Created a better alternative to clunky gene databases, with functions that are consolidated from various gene databases. It's your one-stop shop for …
browser
export
data
search
gene
19 hours ago by
Krish
• 0
1
vote
0
replies
84
views
Tool:
Containerized NGS Data Processing Pipelines
rna-seq
atac-seq
pipeline
chip-seq
docker
21 hours ago by
Noah
▴ 10
0
votes
1
reply
106
views
Scvi - Integration
integration
singlecell
scvi
updated 15 hours ago by
antonioggsousa
3.3k • written 1 day ago by
t.foskolos
• 0
0
votes
0
replies
86
views
Genotype Imputations Question
vcf
imputations
genomics
1 day ago by
Jonathan
• 0
0
votes
1
reply
126
views
Clarification of options --keep-dup: all vs. -f FRAG in MACS3
human
libraries
illumina
callpeak
macs3
updated 1 day ago by
ATpoint
88k • written 1 day ago by
María José
▴ 10
6
votes
2
replies
410
views
Should I perform integration to correct batch effects?
batch
effect
updated 1 day ago by
antonioggsousa
3.3k • written 5 days ago by
han
▴ 20
2
votes
1
reply
142
views
Batch correction in TNBC epithelial cells
tnbc
seurat
epithelialCells
scRNAseq
BatchEffect
updated 1 day ago by
ATpoint
88k • written 1 day ago by
TNF_alpha
• 0
2
votes
5
replies
366
views
7 follow
Best way to install R packages on an HPC?
R
HPC
updated 1 day ago by
Charles Plessy
★ 2.9k • written 2 days ago by
ChumBucket2024
▴ 10
0
votes
2
replies
170
views
how to use filter_vep to filter vcf file
vcf
filter
1 day ago by
htchd
• 0
0
votes
2
replies
179
views
How to interpret genomescope to help remove duplicates
assembly
hifi
genomescope
2 days ago by
mohamadelian1996
• 0
0
votes
2
replies
180
views
Is it valid to stack brightfield and fluorescence channels in a CNN input?
fluorescent-microscopy
imaging
microscopy
updated 2 days ago by
LChart
5.0k • written 2 days ago by
Antonio
• 0
0
votes
0
replies
112
views
FusionCatcher cases where gene1 and gene 2 have 2 matches
fusions
fusioncatcher
2 days ago by
ieie
▴ 20
0
votes
2
replies
182
views
mgl tool index error
docking
molecular
error
1 day ago by
Mahesh
• 0
2
votes
3
replies
276
views
convert raw counts to TPM
R
updated 2 days ago by
dthorbur
★ 3.0k • written 2 days ago by
pinheirofabiano
▴ 130
1
vote
7
replies
301
views
Creating kraken2 custom database
kraken2
updated 2 days ago by
GenoMax
152k • written 2 days ago by
ramiro.barrantes
▴ 60
0
votes
0
replies
116
views
How to determine the coordinate of the transposon insertion on the reverse reading?
Tn-seq
transposon
blastn
2 days ago by
Елизавета
• 0
0
votes
5
replies
290
views
Single-cell RNA Sequencing - transcript abundance estimation using Alevin-Fry
Alevin-Fry
single-cell
sequencing
Salmon
RNA
updated 1 day ago by
Rob
7.1k • written 2 days ago by
wooh
• 0
0
votes
0
replies
122
views
News:
Conservation Genomics course
PopulationGenomics
Ne
ConservationGenomics
2 days ago by
Physalia-courses
★ 2.6k
0
votes
3
replies
253
views
Snakemake Module Error: string indices must be integers
GATK
Snakemake
updated 2 days ago by
Jesse
▴ 870 • written 2 days ago by
andean
• 0
1
vote
3
replies
259
views
How do I generate a Manhattan plot like this?
data-visualization
manhattan-plot
2 days ago by
jianhua.mert
• 0
0
votes
2
replies
267
views
ATAC seq: from peaks to differential analysis ??
MACS2
DESeq2
ATACseq
updated 3 days ago by
rfran010
★ 1.5k • written 3 days ago by
Picasa
▴ 680
1
vote
1
reply
195
views
Where to find expected copy number for a gene
genomics
updated 2 days ago by
GenoMax
152k • written 3 days ago by
LayneSadler
▴ 90
0
votes
4
replies
1.1k
views
Cut&Run replicates handling
peakcaller
replicates
SEACR
chipseq
updated 3 days ago by
schowdhury8950
• 0 • written 12 months ago by
g.anande
• 0
0
votes
1
reply
183
views
Unable to extract count matrices from multi-layered Seurat object
seurat
3 days ago by
bgbs
• 0
21
votes
12
replies
640
views
7 follow
Learning Nextflow
Genomic
Pipeline_analysis
Nextflow
3 days ago by
AIMAR
▴ 40
3
votes
1
reply
277
views
open target platform SNP to Gene qurey
SNPtoGene
GWAS
SNP
updated 4 days ago by
GenoMax
152k • written 4 days ago by
SeoG
▴ 10
0
votes
1
reply
259
views
usage of ChromHMM and Segway
ChromHMM
Segway
updated 3 days ago by
Pierre Lindenbaum
166k • written 4 days ago by
qian
• 0
2
votes
6
replies
2.1k
views
Which tools do you recommend me use to get the maximum information of a protein?
protein
software
updated 4 days ago by
fileyfood
▴ 20 • written 8.7 years ago by
Hamtaro
▴ 60
8
votes
4
replies
1.5k
views
Tools for predicting protein function?
protein
updated 4 days ago by
fileyfood
▴ 20 • written 4.1 years ago by
jamie.pike
▴ 90
8
votes
12
replies
2.8k
views
Map genome positions onto protein coordinates?
pdb
protein
variant
updated 4 days ago by
fileyfood
▴ 20 • written 20 months ago by
cmdcolin
★ 4.2k
3
votes
3
replies
1.4k
views
Online tool for creating figures of gene with its features
features
genes
figures
updated 4 days ago by
fileyfood
▴ 20 • written 2.6 years ago by
andre.arrudalima
▴ 80
2
votes
7
replies
1.5k
views
6 follow
Simple tools for creation of figures of gene and protein structure
gene
protein
updated 19 hours ago by
Krish
• 0 • written 19 months ago by
andre.arrudalima
▴ 80
5
votes
3
replies
1.3k
views
To create amino acid substitution in protein structure
protein
software
updated 4 days ago by
fileyfood
▴ 20 • written 4.2 years ago by
shwetamgr1
▴ 20
40
votes
13
replies
12k
views
14 follow
Where Can I Get The Secondary Structure Of A Protein?
protein
structure
sequence
updated 19 hours ago by
Krish
• 0 • written 15.4 years ago by
Giovanni M Dall'Olio
28k
5
votes
2
replies
2.2k
views
Database Of Structurally Derived Protein Features
uniprot
database
updated 4 days ago by
fileyfood
▴ 20 • written 11.2 years ago by
samesense
▴ 50
2
votes
3
replies
1.8k
views
Protein structure and snps
gene
SNP
updated 4 days ago by
fileyfood
▴ 20 • written 8.8 years ago by
H.Hasani
★ 1.0k
14
votes
7
replies
11k
views
Modelling Effect Of Mutation On Protein Structure
protein
protein
mutation
updated 4 days ago by
fileyfood
▴ 20 • written 13.3 years ago by
didymos
▴ 220
1
vote
2
replies
1.2k
views
Comparison of protein structures
protein
updated 4 days ago by
fileyfood
▴ 20 • written 7.7 years ago by
lochanamp
▴ 80
3
votes
3
replies
4.1k
views
Tools to display mutations in a protein's structure
protein
sequence
updated 4 days ago by
fileyfood
▴ 20 • written 9.3 years ago by
sviatoslav.kendall
▴ 980
2
votes
12
replies
736
views
Different comparisons in RNASeq Analysis
DEGs
RNAseq
updated 1 day ago by
mbyvcm
▴ 460 • written 6 days ago by
SomeOne
▴ 200
121,406 results • Page
1 of 2429
Recent Votes
Learning Nextflow
Learning Nextflow
Answer: Learning Nextflow
Answer: Learning Nextflow
Answer: Should I perform integration to correct batch effects?
Answer: DESeq2 LRT test with multifactorial design
Answer: DESeq2 LRT test with multifactorial design
Recent Locations •
All
USA,
12 minutes ago
United Kingdom,
16 minutes ago
United States,
17 minutes ago
UCLA,
39 minutes ago
UK,
49 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087,
50 minutes ago
Brazil,
59 minutes ago
Recent Awards •
All
Teacher
to
colindaven
7.6k
Popular Question
to
Aspire
▴ 380
Popular Question
to
Juke34
9.2k
Popular Question
to
graeme.thorn
▴ 110
Teacher
to
JC
13k
Teacher
to
antonioggsousa
3.3k
Popular Question
to
Jamie
• 0
Recent Replies
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages
by
Bastien Hervé
6.4k
It makes sense to me to give it a try like this, however along the way depending on your batch effect correction or your pseudotime sanity …
Comment: Insert size is zero
by
GenoMax
152k
It is possible, if your have libraries that failed and are just adapter dimers. You could also try `bbmerge.sh` from BBMap suite to get a…
Answer: How to convert from .spec to .bam?
by
Daniel Lai
• 0
https://github.com/molonc/spec-1.3.2
Comment: Trouble Using GEO Files with Seurat
by
1769mkc
★ 1.3k
merge and the scanpy anndata.concat are they doing exactly same?
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages
by
npont
▴ 10
Hello, Thank you for your reply Indeed visium HD goes down to 2um resolution but I applied a nuclei segmentation which worked pretty nicel…
Answer: Should matched samples (not paired) be included in the DESeq2 design model?
by
i.sudbery
21k
You add an extra covariate to the design matrix when you expect that it will explain some of the variance in gene expression. In general, i…
Comment: Trajectory Analysis scRNA-seq with one cell type and two developmental stages
by
Bastien Hervé
6.4k
I am not sure if there is a "best" approach to do what you want. Some comments : > let's consider them as scRNA-seq data The visium HD g…
Comment: Is this the correct DESeq2 design for model with interaction terms and batch eff
by
marieke
• 0
Sorry for my late answer! This was more of a theoretical question. I'm analyzing multiple projects, and some of them need a batch effect co…
Comment: DESeq2 LRT test with multifactorial design
by
lessismore
★ 1.4k
Dear, thanks for your answer. There's indeed a double interest, one is purely exploratory and and one more specific and that's why I'd like…
Comment: How to run trajectory analysis with only one cell type using palantir?
by
npont
▴ 10
Hello, I was interested by the same topic. Did you follow this procedure at the end? I wonder if you should have filter for neutrophil…
Comment: Distribution of assayed SNPs per sample
by
mbyvcm
▴ 460
I don't think it will be possible for you discern "not on chip" from "on chip but failed" without more information about the chip design, o…
Comment: Scvi - Integration
by
antonioggsousa
3.3k
Your suggestion sounds good to me. There's no need to integrate all the cells if you're only interested in TNK cells - provided you can ide…
Answer: Trouble Using GEO Files with Seurat
by
antonioggsousa
3.3k
Hi, Yes, if you have three patient samples that you aim to integrate, you need to merge them first. If the three patient samples are `S…
Answer: DESeq2 LRT test with multifactorial design
by
LChart
5.0k
A **test** requires a **hypothesis**; but you appear to want to do an exploratory analysis that will give rise to a hypothesis ("examine al…
Comment: Where Can I Get The Secondary Structure Of A Protein?
by
Krish
• 0
You can use Gene Explorer! https://genesearchtool.com/ It's a completely free tool that lets you upload a PDB file then get a secondary t…
Traffic: 2115 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