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121,377 results • Page
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ATAC seq: from peaks to differential analysis ??
MACS2
DESeq2
ATACseq
updated 25 minutes ago by
QX
▴ 70 • written 56 minutes ago by
Picasa
▴ 680
5
votes
2
replies
58
views
Learning Nextflow
Genomic
Pipeline_analysis
Nextflow
updated 39 minutes ago by
Maxime Garcia
▴ 370 • written 2 hours ago by
AIMAR
▴ 10
3
votes
1
reply
145
views
open target platform SNP to Gene qurey
SNPtoGene
GWAS
SNP
updated 23 hours ago by
GenoMax
151k • written 1 day ago by
SeoG
▴ 10
0
votes
0
replies
85
views
usage of ChromHMM and Segway
ChromHMM
Segway
1 day ago by
qian
• 0
839
votes
170
replies
179k
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
2
votes
6
replies
1.9k
views
Which tools do you recommend me use to get the maximum information of a protein?
protein
software
updated 1 day ago by
fileyfood
▴ 10 • written 8.7 years ago by
Hamtaro
▴ 60
8
votes
4
replies
1.4k
views
Tools for predicting protein function?
protein
updated 1 day ago by
fileyfood
▴ 10 • written 4.1 years ago by
jamie.pike
▴ 90
7
votes
12
replies
2.7k
views
Map genome positions onto protein coordinates?
pdb
protein
variant
updated 1 day ago by
fileyfood
▴ 10 • written 20 months ago by
cmdcolin
★ 4.2k
3
votes
3
replies
1.3k
views
Online tool for creating figures of gene with its features
features
genes
figures
updated 1 day ago by
fileyfood
▴ 10 • written 2.6 years ago by
andre.arrudalima
▴ 80
2
votes
5
replies
1.3k
views
Simple tools for creation of figures of gene and protein structure
gene
protein
updated 1 day ago by
fileyfood
▴ 10 • written 19 months ago by
andre.arrudalima
▴ 80
5
votes
3
replies
1.2k
views
To create amino acid substitution in protein structure
protein
software
updated 1 day ago by
fileyfood
▴ 10 • written 4.2 years ago by
shwetamgr1
▴ 20
40
votes
12
replies
12k
views
13 follow
Where Can I Get The Secondary Structure Of A Protein?
protein
structure
sequence
updated 1 day ago by
fileyfood
▴ 10 • written 15.3 years ago by
Giovanni M Dall'Olio
28k
5
votes
2
replies
2.1k
views
Database Of Structurally Derived Protein Features
uniprot
database
updated 1 day ago by
fileyfood
▴ 10 • written 11.2 years ago by
samesense
▴ 50
2
votes
3
replies
1.7k
views
Protein structure and snps
gene
SNP
updated 1 day ago by
fileyfood
▴ 10 • written 8.8 years ago by
H.Hasani
★ 1.0k
14
votes
7
replies
10k
views
Modelling Effect Of Mutation On Protein Structure
protein
protein
mutation
updated 1 day ago by
fileyfood
▴ 10 • written 13.3 years ago by
didymos
▴ 220
1
vote
2
replies
1.1k
views
Comparison of protein structures
protein
updated 1 day ago by
fileyfood
▴ 10 • written 7.7 years ago by
lochanamp
▴ 80
3
votes
3
replies
4.0k
views
Tools to display mutations in a protein's structure
protein
sequence
updated 1 day ago by
fileyfood
▴ 10 • written 9.3 years ago by
sviatoslav.kendall
▴ 980
1
vote
1
reply
174
views
Should I perform integration to correct batch effects?
batch
effect
2 days ago by
han
▴ 10
2
votes
11
replies
499
views
Different comparisons in RNASeq Analysis
DEGs
RNAseq
2 hours ago by
SomeOne
▴ 200
0
votes
1
reply
195
views
Querying on non-canonical bacterial IDs
microbes
protein
accession
updated 2 days ago by
Mensur Dlakic
★ 29k • written 2 days ago by
benjamin.kellman
• 0
0
votes
4
replies
305
views
Distribution of assayed SNPs per sample
distribution
PLINK
missingness
16 hours ago by
am29
▴ 60
0
votes
0
replies
154
views
News:
Learn Python for Biological Data Analysis – Online Course this September!
NGS
Python
Programming
2 days ago by
Physalia-courses
★ 2.6k
3
votes
0
replies
190
views
Tutorial:
How to calculate partial correlation controlling cancer types
CRISPR
biology
correlation
computational
bioinformatics
3 days ago by
Ming Tommy Tang
★ 4.6k
0
votes
1
reply
221
views
SAIGE-GENE error
R
SAIGE
updated 3 days ago by
GenoMax
151k • written 3 days ago by
smyiz
▴ 30
2
votes
1
reply
831
views
IGV track display problem: interval rectangle from BED file appears above all tracks in white, overlapping each other
IGV
bed
3 days ago by
mcsimenc
▴ 30
2
votes
1
reply
258
views
Y-axis break in Volcano Plot
Volcano_Plot
Enhanced_Volcano
updated 3 days ago by
GenoMax
151k • written 3 days ago by
rajdeepboral00
▴ 70
1
vote
0
replies
201
views
How to rank a gene list using correlation coefficient and p-values for GSEA/clusterProfiler?
ClusterProfiler
GSEA
correlation
rank
genelist
3 days ago by
c-wes
▴ 10
2
votes
4
replies
405
views
Nanopore data analysis
nanopore
updated 3 days ago by
colindaven
7.6k • written 4 days ago by
sarahmanderni
▴ 130
6
votes
2
replies
1.5k
views
What is the difference between norm --multiallelics -any versus --atomize?
bcftools
updated 3 days ago by
ashotmarg2004
▴ 130 • written 21 months ago by
a615ebfb
▴ 50
0
votes
1
reply
236
views
checking the sequences that share origin
sequencing
updated 3 days ago by
GenoMax
151k • written 3 days ago by
QX
▴ 70
0
votes
0
replies
196
views
News:
Assembling Genomes with Oxford Nanopore: A Hands-On Guide to Long-Read Sequencing
Nanopore
GenomeAssembly
longreads
4 days ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
311
views
Bambu on illumina short reads sequencing
Bambu
updated 3 days ago by
Rob
7.1k • written 4 days ago by
Simone
• 0
0
votes
0
replies
203
views
Isoquant Major Exon Elongation
isoquant
nanopore
exon
4 days ago by
aico
• 0
0
votes
0
replies
212
views
bcftools run-roh error
roh
bcftools
updated 4 days ago by
GenoMax
151k • written 4 days ago by
Pratiksha
• 0
0
votes
0
replies
218
views
News:
Workshop: Virtual Single-Cell Transcriptomics, June 24–26
Transcriptomics
workshop
UConn
4 days ago by
zsc25001
▴ 10
1
vote
6
replies
417
views
How can I find KO IDs for ORF sequences from kofam_scan ?
biology
Computational
Bioinformatics
4 days ago by
Nikesh
• 0
0
votes
0
replies
227
views
VEP all genes are skipped due to invalid types
variants
GTF
VEP
annotation
4 days ago by
Titus
▴ 910
4
votes
3
replies
393
views
Isoform analysis after quantification with Salmon/Star
STAR
Salmon
Isoform
analysis
3 days ago by
rajdeepboral00
▴ 70
0
votes
0
replies
213
views
Confidence in CIBERSORT (LM22) Deconvolution Output for Rare Cell Types — Best Practices?
LM22
DECONVOLUTION
CIBERSORT
4 days ago by
Pumla
• 0
1
vote
7
replies
497
views
Significant reads loss after fastp
fastp
loss
reads
updated 3 days ago by
GenoMax
151k • written 4 days ago by
SpliceAndScript
• 0
1
vote
1
reply
281
views
Shinyapps Server Down?
Shinyapps
Posit
updated 4 days ago by
GenoMax
151k • written 5 days ago by
Arup Ghosh
3.3k
0
votes
2
replies
345
views
Data of microarray
Microarray
4 days ago by
Peter
• 0
0
votes
0
replies
253
views
How to run GSVA on scRNA-Seq analysis on multiple clusters and groups to compare per tumor sample?
GSVA
scRNA-Seq
5 days ago by
Minh-Anh
▴ 10
2
votes
4
replies
439
views
Best Tool for Fast RNA-Seq Transcriptome Alignment to Extract Unmapped Reads
mapping
rna-seq
4 days ago by
aeb
▴ 20
0
votes
2
replies
338
views
Time scaled tree with IQTree giving off looking branch length
bacteria
phylogeny
time
evolution
scaled
5 days ago by
SushiRoll
▴ 140
1
vote
2
replies
356
views
Signature Matrix Modifications/Subclustering
signature
matrix
scRNA-seq
seurat
cibersortx
5 days ago by
MitchT
▴ 10
4
votes
2
replies
347
views
Picard CollectRawWgsMetrics runs much slower on non-Apple chip machine
picard
updated 5 days ago by
Michael
55k • written 5 days ago by
adixon3
• 0
0
votes
0
replies
263
views
Reporting Imputed SNPs in GWAS
impute
GWAS
updated 5 days ago by
Ram
45k • written 5 days ago by
Aastha
• 0
0
votes
0
replies
240
views
Does Beagle use the reference genome for both phasing AND imputing genotypes?
beagle
genotypes
phasing
imputation
5 days ago by
giulia.trauzzi
▴ 30
0
votes
0
replies
240
views
In GERPplusplus, odd gerpelem outputs
GERP
evolutionary
gerpcol
substitution
gerpelem
rates
rejected
5 days ago by
Begonia_pavonina
▴ 210
121,377 results • Page
1 of 2428
Recent Votes
C: VCF files: Change Chromosome Notation
How to take in consideration UMI in WES pipeline?
Answer: Learning Nextflow
Answer: open target platform SNP to Gene qurey
open target platform SNP to Gene qurey
single-nuclei 10X genomics
Answer: Forward And Reverse Strand Conventions
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Answer: ATAC seq: from peaks to differential analysis ??
by
QX
▴ 70
2: # make saf file: awk 'OFS="\t" {print $1":"$2+1"-"$3, $1, $2+1, $3, "+"}' ${sample}_peaks.narrowPeak > featureCounts_peaks.s…
Answer: Learning Nextflow
by
Maxime Garcia
▴ 350
I would recommend going directly to the Nextflow training: https://training.nextflow.io/ The hello nextflow series is I think pretty good …
Comment: phage sequence no alignment to genome
by
Luwell
• 0
Thank you! The `StrainA_genome.fasta` file is a complete genome assembly generated by our team and has been submitted to NCBI. For all ali…
Comment: Different comparisons in RNASeq Analysis
by
SomeOne
▴ 200
HI, @mbyvcm Thank you for your reply. Actually i have already done the analysis you suggest, **(Plant Mut vs. Plant WT)** is same as …
Answer: Learning Nextflow
by
Raony Guimarães
★ 1.4k
Hi there, Here is a good list of resources you can use: https://github.com/nextflow-io/awesome-nextflow
Comment: Distribution of assayed SNPs per sample
by
am29
▴ 60
The vcf file looks like this: CHR BP SNP ID GENOTYPE SAMPLE ID 1 5234 1:5234 ./. SAMPLE_1
Comment: Distribution of assayed SNPs per sample
by
am29
▴ 60
I am interested in whether the reason might not be that individuals are genotyped with different SNP chips but that genotype calls for geno…
Comment: How do I change the title font size in ViolinPlot (Seurat)
by
e.r.zakiev
▴ 260
wow this ampersand hack is crazy, thank you! I've been in the R field since 2015 and didn't know this thing
Answer: open target platform SNP to Gene qurey
by
GenoMax
151k
Did you see this announcement: > Open Targets Genetics has been superseded by the Open Targets Platform > 25.03 release with updated g…
Answer: Which tools do you recommend me use to get the maximum information of a protein
by
fileyfood
▴ 10
For modeling, check out the [AlphaFold Server][1] for predicting protein structure. [1]: https://alphafoldserver.com/
Answer: Tools for predicting protein function?
by
fileyfood
▴ 10
Have you read the [wikicrow entry][1] on the gene? Wikicrow is an LLM generated jumping off point, so while you should treat the informatio…
Answer: Map genome positions onto protein coordinates?
by
fileyfood
▴ 10
You can use [ensemble VEP][1] to get the protein coding changes. You can then use [the Genomics 2 Proteins portal][2] to map these changes…
Answer: Online tool for creating figures of gene with its features
by
fileyfood
▴ 10
Yes, check out [the Genomics 2 Proteins portal.][1] The tool allow you to map any feature, including domains onto a protein structure and c…
Answer: Simple tools for creation of figures of gene and protein structure
by
fileyfood
▴ 10
Yes, check out [the Genomics 2 Proteins portal][1]. The tool allow you to map any feature, including domains onto a protein structure and c…
Answer: To create amino acid substitution in protein structure
by
fileyfood
▴ 10
For more intensive analysis, you can consider MD simulations of the mutant protein where you relax the structure after mutation using tools…
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