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120,442 results • Page
1 of 2409
Sort: Rank
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Votes
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0
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0
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7
views
CLI Downloading from Human Microbiome Project Given Login + contact failure
Microbiome
HMP
download
24 minutes ago by
Maxwell
▴ 50
1
vote
2
replies
125
views
How to predict targets of miRNAs with indels in the seed region?
seed
indels
targets
miRNA
updated 2 hours ago by
ATpoint
87k • written 20 hours ago by
jhonatan.henrique
• 0
0
votes
2
replies
1.2k
views
News:
FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (March 17-19, 2025 in Berlin, Germany)
transcriptomics
scRNAseq
singleCell
4 hours ago by
ecSeq Bioinformatics
▴ 10
6
votes
3
replies
186
views
How to determine new bacterial species from custom isolate?
species
genome
submission
updated 1 hour ago by
5heikki
11k • written 1 day ago by
marongiu.luigi
▴ 740
2
votes
0
replies
34
views
Plink removing a lot of samples
PLINK2
plink
GWAS
4 hours ago by
Steven
▴ 20
3
votes
6
replies
3.5k
views
How To Retrieve The Rna Type From A Pdb File?
rna
pdb
updated 5 hours ago by
Eugene F. Baulin
▴ 20 • written 12.9 years ago by
Noam N. Kremen
▴ 60
828
votes
169
replies
167k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 5 months ago by
Biostar
3.4k • written 8.2 years ago by
Istvan Albert
102k
0
votes
1
reply
54
views
How to Analyze 10x Genomics Data with Full-Length R1 and R2 (100bp Each)?
10x-Genomics
UMI
single-cell
RNA-Seq
CellRanger
updated 4 hours ago by
GenoMax
149k • written 5 hours ago by
zbidav
▴ 30
0
votes
0
replies
35
views
Mapping OMIM IDs (for diseases) to MeSH IDs
phenotype
ontology
DISEASE
MESH
OMIM
6 hours ago by
singhankit973
• 0
0
votes
2
replies
969
views
Gini Coefficient and Lorenz curve to measure uniformity of coverage
gini
lorenz curve
coverage uniformity
7 hours ago by
am
▴ 60
2
votes
6
replies
183
views
DESeq2 for multiple groups
usegalaxy
Limma
voom
Deseq2
8 hours ago by
banaalkhayrat123
• 0
1
vote
2
replies
310
views
Bowtie index size / richness matters ?
bowtie
11 hours ago by
maschi88
• 0
0
votes
0
replies
49
views
Full-length LINE1 for mm10
LTR
updated 8 hours ago by
GenoMax
149k • written 12 hours ago by
Bioinformatics_16
• 0
0
votes
1
reply
96
views
Limma Voom
Differential
analysis
updated 12 hours ago by
ATpoint
87k • written 13 hours ago by
maryak
▴ 20
0
votes
0
replies
37
views
Blog:
Novogene Single-cell and Spatial Multi-omics Case Study: Application in Bone Regeneration
Multi-omics
Single-cell
13 hours ago by
Novogene
▴ 460
0
votes
1
reply
81
views
SNP density visualization with circos in galaxy
visualization
CIRCOS
updated 14 hours ago by
Pierre Lindenbaum
165k • written 14 hours ago by
ag18090
• 0
0
votes
1
reply
111
views
Unusual File Count in 10x scMultiome Data for Cell Ranger ARC Processing
scMultiome
10x
fastq
human_cell_atlas
cellranger_arc
updated 17 hours ago by
GenoMax
149k • written 1 day ago by
Wu-Sheng Zhang
• 0
0
votes
1
reply
144
views
I want to merge 123 seurat objects in R, I am running into issues with memory, how do I do this/
seurat
merge
cell
single
updated 1 day ago by
ATpoint
87k • written 1 day ago by
biotrekker
▴ 110
0
votes
0
replies
89
views
News:
Online Course: Network Analysis in R (May 5-8)
R
NetworkAnalyis
Tidyverse
1 day ago by
Physalia-courses
★ 2.6k
0
votes
1
reply
145
views
News:
Short Survey on Genomic Data Management & Analysis Workflows
Analysis
Genomics
updated 1 day ago by
Jeremy Leipzig
23k • written 1 day ago by
QMS
• 0
0
votes
1
reply
123
views
Motif enrichment across super-enhancer regions
motif
HOMER
enrichment
updated 1 day ago by
rfran010
★ 1.3k • written 1 day ago by
SEJAL
• 0
0
votes
0
replies
100
views
JASPAR Database
JASPAR
HOMER
1 day ago by
SEJAL
• 0
1
vote
3
replies
211
views
Finding ORFs in a FASTA file
MatrixScore
ORFs
Motifs
MotifScoring
Bioinformatics
updated 10 hours ago by
Michael
55k • written 1 day ago by
Melissa
• 0
1
vote
1
reply
148
views
How to perform Linkage Disequilibrium (LD) analysis in INDELS
SNPs
PLINK
linkage
disequilibrium
haploview
updated 5 hours ago by
dthorbur
★ 2.8k • written 2 days ago by
Ant
▴ 40
0
votes
0
replies
120
views
Spatt2.1 a mirMap dependency, anyone know where I can get it?
miRmap
dependency
tarball
2 days ago by
RNAseqer
▴ 280
0
votes
0
replies
119
views
DeChat Nanopore read correction with Medaka correction?
ont
medaka
wgs
dechat
nanopore
2 days ago by
Mark
▴ 30
0
votes
0
replies
145
views
Why are phenotype values missing in PLINK analysis despite no NA values in the input?
PLINK
PRS
PHS
PGS
SNPanalysis
2 days ago by
comu
• 0
2
votes
2
replies
294
views
Should I not have any adapters after trimming?
RNA-seq
updated 2 days ago by
swbarnes2
14k • written 3 days ago by
bioinfo
▴ 150
1
vote
3
replies
306
views
Multiple fail points in fastqc file
fastqc
report
updated 2 days ago by
swbarnes2
14k • written 3 days ago by
dr.deepakkukkar
• 0
2
votes
6
replies
372
views
Incorrect gene naming (SYMBOL)
Gene-annotation
updated 4 hours ago by
Ram
44k • written 3 days ago by
Biomed-jeh
▴ 70
0
votes
0
replies
191
views
Interactive UMAP for scRNA-seq Data
HTML
RMarkdown
Interactive-UMAP
scRNA-seq
updated 3 days ago by
Ram
44k • written 3 days ago by
s
• 0
1
vote
1
reply
261
views
Problem after subset of single cell integrated dataset in seurat using sctransform
seurat
integration
scRNAseq
sctransform
subset
3 days ago by
NGS_enthusiast
• 0
3
votes
4
replies
365
views
Per Sequence GC Content fail
fastqc
updated 3 days ago by
GenoMax
149k • written 4 days ago by
Eduardo
• 0
2
votes
5
replies
1.1k
views
Compare genomes of different species and published studies (different years, sequencing technologies...) is correct?
comparative-genomics
updated 10 hours ago by
dthorbur
★ 2.8k • written 3 days ago by
Bruno Santos
• 0
3
votes
3
replies
383
views
Why do people say it doesn't matter whether you run unassembled or assembled reads through Kraken?
assembly
unassembled-reads
Kraken
updated 10 hours ago by
dthorbur
★ 2.8k • written 4 days ago by
trkfs
▴ 10
3
votes
5
replies
321
views
Best way to provide sequences to Local Colabfold to not overload their mmseq2 server
Local
ColabFold
updated 3 days ago by
dthorbur
★ 2.8k • written 3 days ago by
myoui3122010
▴ 30
4
votes
9
replies
521
views
Preventing Conda/Mamba from accessing Anaconda repos when institution blocks them
conda
mamba
repos
miniforge
channels
updated 2 days ago by
Jesse
▴ 850 • written 3 days ago by
kalavattam
▴ 310
3
votes
6
replies
975
views
Tool:
A c library for reading and writing sequences in fasta and fastq format.
seqio
3 days ago by
dwpeng
▴ 110
0
votes
0
replies
181
views
Difference between mutect2 and strelka2
mutect2
strelka2
3 days ago by
ramiro.barrantes
▴ 20
0
votes
1
reply
301
views
GO Analysis Combine or Separate DEGs
clusterProfiler
GO
updated 3 days ago by
mark.ziemann
★ 2.0k • written 6 days ago by
Koki
• 0
1
vote
1
reply
358
views
scType on Xenium Spatial Transcriptomics
Spatial
Xenium
scType
updated 3 days ago by
geno89
▴ 10 • written 18 days ago by
Emma Jayne
▴ 10
0
votes
0
replies
179
views
How to extract the components of a cluster after pheatmap
Heatmap
Export
Cluster
3 days ago by
Luiza
• 0
0
votes
1
reply
481
views
Interpretation of MSMC2/PSMC/betaPSMC/ngsPSMC
Demography
PSMC
MSMC
updated 4 days ago by
csarabia
• 0 • written 3 months ago by
vap768
• 0
0
votes
3
replies
285
views
Metagenomic binnig step
binnig
tools
Metagenomics
updated 4 days ago by
Mensur Dlakic
★ 28k • written 4 days ago by
m90
▴ 30
0
votes
1
reply
234
views
Tool to phase genotyped large SV from short-read data?
sv
structural
variant
short-reads
haplotype
phasing
updated 3 days ago by
Pierre Lindenbaum
165k • written 4 days ago by
afurches
• 0
0
votes
0
replies
167
views
Normalisation for sample splice junction profiles
splicing
normalisation
RNAseq
4 days ago by
coolmattmonkey
• 0
0
votes
0
replies
170
views
Calculate base pair probability differences between Wild type and mutant sequences
probabilities
rnaplfold
rnafold
basepair
4 days ago by
RK
• 0
0
votes
1
reply
326
views
What is indicated by the red dotted lines in the `tiny_10x_pbmc.pdf` out put from `cellbender remove-background`
remove-background
cellbender
updated 3 days ago by
Bastien Hervé
6.1k • written 4 days ago by
joshua.theisen
▴ 30
1
vote
2
replies
328
views
Parameters for annotation with maker
Maker
masking
plant
annotation
3 days ago by
san96
▴ 170
5
votes
3
replies
286
views
Extracting Sequences from a FASTA File Using Exon Coordinates from a GTF File
gtf
fasta
updated 4 days ago by
colindaven
7.1k • written 4 days ago by
Milica
• 0
120,442 results • Page
1 of 2409
Recent Votes
How to determine new bacterial species from custom isolate?
Answer: Snakemake >= version 8 cluster configuration and SLURM job submission
Comment: How to determine new bacterial species from custom isolate?
Answer: How to determine new bacterial species from custom isolate?
Answer: How to determine new bacterial species from custom isolate?
Answer: DESeq2 for multiple groups
Answer: DESeq2 for multiple groups
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Comment: How to predict targets of miRNAs with indels in the seed region?
by
Buffo
★ 2.4k
I agree with @iansudbery answer. The first step would be to test if those molecules can still form valid hairpin precursors to be processed…
Comment: How to Analyze 10x Genomics Data with Full-Length R1 and R2 (100bp Each)?
by
GenoMax
149k
Cell ranger should be able take what it needs from read 1. Proceed as normal.
Answer: FINAL CALL - Single-Cell RNA-Seq Data Analysis: A Practical Introduction (March
by
ecSeq Bioinformatics
▴ 10
Update: Two last seats are available.
Answer: How to determine new bacterial species from custom isolate?
by
5heikki
11k
`mash dist -k 17 -s 50000`, distance should be at least 0.03 if we go by the "classic" 97% similarity species threshold, but it's not reall…
Comment: Incorrect gene naming (SYMBOL)
by
Ram
44k
The reason I asked that question was that you can access the resources used in more depth when you're on a cluster and also get help from a…
Answer: How To Retrieve The Rna Type From A Pdb File?
by
Eugene F. Baulin
▴ 20
Not ideal solutions, but here: 1) Rfam-PDB mappings: https://ftp.ebi.ac.uk/pub/databases/Rfam/CURRENT/Rfam.pdb.gz 2) Representative sets …
Comment: How to perform Linkage Disequilibrium (LD) analysis in INDELS
by
dthorbur
★ 2.8k
Is there any way you can phase the data? And do you have access to the original VCF files with the data? All the tools I can think of start…
Answer: Gini Coefficient and Lorenz curve to measure uniformity of coverage
by
am
▴ 60
Hi Federico, I kept using ineq or python code: https://github.com/auroramaurizio/my_DNA_seq_pipelines/blob/main/GINI_index/Snakefile. I a…
Comment: DESeq2 for multiple groups
by
banaalkhayrat123
• 0
Yes Thank you!
Answer: Gini Coefficient and Lorenz curve to measure uniformity of coverage
by
abascalfederico
★ 1.2k
Hi, did you find a program to do this?
Comment: DESeq2 for multiple groups
by
GenoMax
149k
https://help.galaxyproject.org/c/usegalaxy-eu-support/6 is the forum for Galaxy EU Support.
Comment: How to determine new bacterial species from custom isolate?
by
michael.ante
★ 4.0k
Different species have different inherent mutation rates; check if your species of interest has some published values and compute if your i…
Comment: DESeq2 for multiple groups
by
ATpoint
87k
This you have to ask at the Galaxy support, they have a forum like this one here afaik.
Comment: DESeq2 for multiple groups
by
banaalkhayrat123
• 0
Thank you so much @ATpoint. That is amazing since I will try to run the analysis in RStudio. However, my question was namely in usegalaxy.e…
Comment: DESeq2 for multiple groups
by
banaalkhayrat123
• 0
Thank you so much @ATpoint. That is amazing since I will try to run the analysis in RStudio. However, my question was namely in usegalaxy.e…
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