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
Post does not exist.
Limit : all time
all time
today
this week
this month
this year
116,962 results • Page
1 of 2340
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
26
views
how to treat the replicates while performing WGCNA
clustering
WGCNA
replicates
2 hours ago by
mavy
▴ 10
0
votes
0
replies
28
views
How to extract cells of different species after mapping with combined genome?
snrnaseq
scrnaseq
2 hours ago by
vk
▴ 10
797
votes
167
replies
143k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.8k • written 7.4 years ago by
Istvan Albert
100k
1
vote
1
reply
138
views
Calculate allelic frequency from VEP output vcf file
VEP
variant
4 hours ago by
ramiro.barrantes
• 0
1
vote
1
reply
92
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
updated 4 hours ago by
marco.barr
▴ 120 • written 8 hours ago by
diqixiaoyaoer
▴ 10
2
votes
6
replies
1.8k
views
How can you *consistently* download BioProject IDs from NCBI's BioSample database using Entrez Direct?
XML
ncbi
entrez-direct
updated 3 hours ago by
Ram
43k • written 3.9 years ago by
millere
• 0
0
votes
2
replies
184
views
DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts in whole blood: is it normal to always get NS?
rstudio
DEG
limma
updated 4 hours ago by
swbarnes2
14k • written 14 hours ago by
egascon
• 0
0
votes
0
replies
42
views
What's next after GATK variant calling pipeline?
GATK
pipeline
figures
DNA-seq
5 hours ago by
mgranada3
▴ 30
0
votes
0
replies
39
views
Add line under stat test
stats
R
5 hours ago by
Ghada
• 0
1
vote
5
replies
734
views
Converting IGV to Figure using Illustrator (or other tools)
Illustrator
IGV
written 6 months ago by
Daniel
▴ 30
0
votes
0
replies
45
views
DOCK6 installation on MacOS M1
installation
troubleshooting
DOCK6
updated 6 hours ago by
GenoMax
142k • written 7 hours ago by
Rodolfo Adrián
• 0
1
vote
3
replies
131
views
Genotyping sites with N in reference genome
GATK
UnifiedGenotyper
updated 7 hours ago by
Zhenyu Zhang
★ 1.2k • written 8 hours ago by
shpak.max
▴ 50
0
votes
1
reply
88
views
Can 5' and 3' scRNAseq be processed with the same pipeline?
singlecell
seurat
10XGenomics
scRNAseq
updated 8 hours ago by
yura.grabovska
▴ 70 • written 8 hours ago by
ev97
▴ 20
0
votes
2
replies
101
views
Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NULL > pointer.
blast
meta
how-to
ncbi
forum
7 hours ago by
hophuquy0944
• 0
0
votes
2
replies
100
views
Sequencing Depth (Read Depth) Calculations
depth
updated 8 hours ago by
GenoMax
142k • written 9 hours ago by
jiahangkui1234
• 0
0
votes
1
reply
79
views
Wrong ZYGOSITY by ensembl vep on DeepVariant vcf file
annotation
vcf
vep
zygosity
deepvariant
8 hours ago by
asalimih
▴ 60
0
votes
0
replies
55
views
Is it okay to assemble my 12 metatranscriptome samples with Trinity separately?
trinity
metatranscriptome
9 hours ago by
jway
• 0
2
votes
2
replies
114
views
Cannot install bwa-mem2 via conda
conda
mamba
python
code
updated 9 hours ago by
Istvan Albert
100k • written 10 hours ago by
jsmith120f
• 0
2
votes
2
replies
140
views
genome finishing
finishing
genome
updated 10 hours ago by
nd48
▴ 20 • written 13 hours ago by
trezini
• 0
1
vote
5
replies
157
views
Circos Plot to Visualize Chromatin Accessibility Changes from ATAC-seq Data
circos
atacseq
updated 10 hours ago by
Pierre Lindenbaum
161k • written 11 hours ago by
biology_inform
▴ 50
1
vote
4
replies
212
views
Add stats to boxplot in R
stats
R
6 hours ago by
Ghada
• 0
0
votes
0
replies
64
views
Seurat v5 and how to correctly integrate across multiple experiments
Seurat
scRNA
R
updated 10 hours ago by
ATpoint
82k • written 11 hours ago by
yura.grabovska
▴ 70
0
votes
0
replies
57
views
Difference in number of reads when using duplex and simplex base calling with Dorado
base
calling
nanopore
simplex
dorado
duplex
11 hours ago by
Lélé
▴ 10
0
votes
3
replies
100
views
Tool:
Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Minutes
Decimal
Degrees
python
Degree
offtopic
updated 11 hours ago by
Joe
21k • written 11 hours ago by
kuttibiotech2009
▴ 30
0
votes
3
replies
154
views
calculating genomic coverage/ base overlap in R
bioinoformatics
genomics
updated 7 hours ago by
marco.barr
▴ 120 • written 12 hours ago by
Sayantani
• 0
0
votes
3
replies
114
views
Annotating file using bcftools
annotation
plink
bcftools
2 hours ago by
kl
▴ 10
0
votes
8
replies
254
views
Duplicated reads (IDs) from nanopore sequencing
bam
nanopore
sequencing
updated 9 hours ago by
GenoMax
142k • written 18 hours ago by
njornet
▴ 20
0
votes
3
replies
111
views
Problem with Calling Variants from RNA-Seq data
vcf
gatk
benchmark
giab
rna-seq
14 hours ago by
Esraa
• 0
1
vote
1
reply
103
views
Getting differential ChIP-seq peaks between conditions after calling consensus peaks
MAnorm
ChIP-seq
consensus
peaks
updated 15 hours ago by
ATpoint
82k • written 16 hours ago by
Alexandra
• 0
1
vote
1
reply
183
views
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
limma
updated 16 hours ago by
dariober
14k • written 1 day ago by
Holly
▴ 10
1
vote
4
replies
206
views
Filtering VCF files based on VAF giving incorrect results
bcftools
GATK
Bioinformatics
picard
VCF
3 hours ago by
Arton
▴ 10
0
votes
0
replies
66
views
ReactomeGSA
ReactomeGSA
16 hours ago by
Shaimaa Gamal
▴ 10
0
votes
0
replies
59
views
News:
New course: Manipulation of NGS Data for Genomic and Population Genetics Analyses
KeepLearning
TScourses
17 hours ago by
Transmitting Science communication
▴ 70
0
votes
4
replies
148
views
bbmerge (bbmap) ~ error with insert size file output
bbtools
bbmerge
bbmap
35 minutes ago by
chrisk
• 0
0
votes
1
reply
106
views
perseus software (version 1.5.5)
preseus
mass
spectrometry
data
updated 11 hours ago by
Joe
21k • written 20 hours ago by
iqra
• 0
0
votes
0
replies
78
views
Why the shape of RCS is contradictory to the p value for nonlinearity.
RCS
ggplot2
ggplot
R
updated 22 hours ago by
GenoMax
142k • written 23 hours ago by
Dude
• 0
0
votes
0
replies
72
views
NEURON, Brian2, NEST, or PyNN
NEST
NEURON
PyNN
Brian2
23 hours ago by
brunofelicianodeomena
• 0
1
vote
2
replies
167
views
Alphafold 3 pLDDT coloring scheme in chimerax?
ChimeraX
Alphaphold
Alphaphold3
updated 17 hours ago by
colindaven
6.4k • written 1 day ago by
mbrav005
• 0
0
votes
1
reply
125
views
Polish a large genome with Pilon
Pilon
Pacbio
Polish
Illumina
20 hours ago by
sansan_96
▴ 90
1
vote
2
replies
180
views
Doubt about the process of annotation, detection, identification and classification of transposable elements
annotation
TransposableElements
4 hours ago by
MarcosCosta
• 0
2
votes
2
replies
179
views
Genome Visualization Tools
bacterial
genome
updated 1 day ago by
GenoMax
142k • written 1 day ago by
dlera.lozano
▴ 10
2
votes
3
replies
187
views
RSeQC : infer_experiment.py Error: Could not retrieve index file
RSeQC
RNA-Seq
updated 1 day ago by
Ram
43k • written 1 day ago by
Prawesh
• 0
1
vote
3
replies
244
views
Using ggplotly in R
ggplot
ggplotly
updated 9 hours ago by
jared.andrews07
★ 16k • written 1 day ago by
jen
▴ 10
0
votes
1
reply
145
views
Why does assigning genes with biomart give me different values than using a transcripts_to_genes.txt file?
biomart
RNAseq
kallisto
updated 1 day ago by
GenoMax
142k • written 1 day ago by
bioinfo
▴ 150
0
votes
3
replies
234
views
RNAseq RNA content
mRNA
Linux
rRNA
RNA-seq
RNA
updated 1 day ago by
noodle
▴ 580 • written 1 day ago by
doramora
▴ 10
0
votes
1
reply
134
views
Post-imputation QC for input into GWAS analyses
gwas
prs
updated 1 day ago by
LauferVA
4.2k • written 1 day ago by
graeme.thorn
▴ 100
0
votes
2
replies
164
views
Using Cutadapt to trim adapters from paired-end small RNA sequence data
trimming
adapters
cutadapt
sRNA-seq
smallRNA
17 hours ago by
melissa.joubert
• 0
4
votes
1
reply
188
views
Extracting only 4-fold degenerate sites from gene sequences/alignments?
alignments
1 day ago by
J.
▴ 40
0
votes
0
replies
101
views
Is there a real ground truth for CNV data?
CNV
1 day ago by
jennyp0706
• 0
0
votes
3
replies
201
views
Biomart issue, why so few 3'utrs?
utr
biomart
updated 1 day ago by
GenoMax
142k • written 2 days ago by
RNAseqer
▴ 270
116,962 results • Page
1 of 2340
Recent Votes
Answer: Using ggplotly in R
Comment: How to calculate coverage of Nanopore long read data?
Answer: In one PCA plot, can I calculate the percentage of different factors that contri
Answer: Calculate allelic frequency from VEP output vcf file
Answer: How can you *consistently* download BioProject IDs from NCBI's BioSample databas
Answer: Cluster sub-set analysis using Seurat
Answer: Cannot install bwa-mem2 via conda
Recent Locations •
All
Brazil,
8 minutes ago
Australia,
10 minutes ago
United States,
11 minutes ago
United States,
18 minutes ago
Australia,
19 minutes ago
United States,
20 minutes ago
United States,
28 minutes ago
Recent Awards •
All
Popular Question
to
AshleeThomson
▴ 80
Popular Question
to
vk
▴ 10
Scholar
to
Prawesh
• 0
Popular Question
to
Jean-Karim Heriche
27k
Popular Question
to
Chironex
▴ 40
Scholar
to
rpolicastro
13k
Popular Question
to
Amr
▴ 160
Recent Replies
Comment: bbmerge (bbmap) ~ error with insert size file output
by
chrisk
• 0
Hi Brian, Thank you and apologies for the extra future revision works. Out of curiosity we disabled neural networks 'nn=f' and the file o…
Comment: bbmerge (bbmap) ~ error with insert size file output
by
chrisk
• 0
Hi Genomax, This is the thread: https://www.biostars.org/p/9582467/ Cheers, Chris
Comment: Inquiry about deseq2 transformation
by
Chen
• 0
that's helpful, thanks :)
Comment: bbmerge (bbmap) ~ error with insert size file output
by
Brian Bushnell
20k
Ah, this is a little embarrassing; those are the vectors for the neural network. I overloaded a field that was being used for the insert s…
Comment: Annotating file using bcftools
by
kl
▴ 10
Thanks - I corrected it. It doesn't seem to annotate. I converted to binary after which is what is shown below. It is not the output I want…
Comment: Filtering VCF files based on VAF giving incorrect results
by
Arton
▴ 10
These are valid questions. Does your code address the concerns you've raised? From what I understand, FilterVcf is primarily designed for h…
Answer: Calculate allelic frequency from VEP output vcf file
by
ramiro.barrantes
• 0
Found the answer here!! https://github.com/Illumina/strelka/blob/master/docs/userGuide/README.md#somatic Although this leads to a str…
Comment: Using VEP annotation output as the input for a second VEP annotation
by
Ram
43k
That's not a valid reason to delete the post. If that information was sensitive, posting it here was a mistake in the first place. I don't …
Answer: In one PCA plot, can I calculate the percentage of different factors that contri
by
marco.barr
▴ 120
Hi, regardless of how you generated the data whether with DESeq2 or other pipeline, your differential expression matrix can be used as inpu…
Comment: Filtering VCF files based on VAF giving incorrect results
by
Pierre Lindenbaum
161k
> Do you think my commands were correct? I'm not familiar enough with this bcftools syntax. but what if there is no AD, what if both…
Answer: How can you *consistently* download BioProject IDs from NCBI's BioSample databas
by
Ash
▴ 10
I know this was asked several years ago, but finding this post helped me solve my own problem and in the process I solved this one too. …
Answer: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
by
swbarnes2
14k
Would Parkinson's be expected to have an effect on blood cells? Neurons, sure, but blood cells?
Comment: Doubt about the process of annotation, detection, identification and classificat
by
MarcosCosta
• 0
Thank you very much, you've helped me a lot. Could you suggest a book or article that offers a complete explanation of these processes?
Comment: Filtering VCF files based on VAF giving incorrect results
by
Arton
▴ 10
Thank you. I can't try a completely new tool but I will keep your command for future use. Do you think my commands were correct? For exampl…
Comment: Add stats to boxplot in R
by
Ghada
• 0
Thanks. Thats work
Traffic: 1969 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