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 : this month
all time
today
this week
this month
this year
1,114 results • Page
3 of 23
Sort: Rank
Rank
Views
Votes
Replies
3
votes
3
replies
292
views
Sequence read length shorter than flow cell specification
illumina
NGS
sequencing
updated 4 days ago by
swbarnes2
14k • written 5 days ago by
M
• 0
0
votes
0
replies
159
views
Designing single-stable RNA molecules
structure
RNA
4 days ago by
Edna
• 0
0
votes
0
replies
171
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
4 days ago by
simplitia
▴ 130
0
votes
1
reply
215
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 4 days ago by
ATpoint
82k • written 4 days ago by
AaronJaime
• 0
0
votes
2
replies
285
views
BLAST using both nucleotides and taxonomic local databases
blast
ncbi
taxid
taxonomy
updated 4 days ago by
GenoMax
141k • written 5 days ago by
Begonia_pavonina
▴ 150
0
votes
3
replies
351
views
why renaming Idents in Seurat object doesn't work?
Seurat
RenameIdents
R
3 hours ago by
Assa Yeroslaviz
★ 1.8k
1
vote
2
replies
320
views
ScRNAseq-How to correctly choose cell type marker genes
cellAssign
cell-markers
2 days ago by
Francesco
▴ 10
1
vote
7
replies
462
views
ScRNA data question
scRNA
Vlnplot
Samples
updated 1 day ago by
bk11
★ 2.4k • written 5 days ago by
starswillfade
▴ 10
0
votes
0
replies
165
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
5 days ago by
avocado123
• 0
0
votes
0
replies
161
views
News:
Master Meta-analysis with R (May 13-16) - Online!
Meta-Analysis
Statistics
R
updated 4 days ago by
Ram
43k • written 5 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
152
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
correlation
5 days ago by
Emily
▴ 10
1
vote
0
replies
165
views
How to calculate reliable Ka/Ks or dN/dS ratio for genes of interest from VCF file
dnds
kaks
VCF
5 days ago by
rohitsatyam102
▴ 850
0
votes
0
replies
151
views
how to read graph_test output of monocle 3
monocle3
5 days ago by
synat.keam
▴ 100
1
vote
0
replies
196
views
Job:
CTO/founding engineer role at Voyant Bio
engineer
5 days ago by
Assaf
▴ 10
0
votes
1
reply
483
views
GAPIT p-value significance threshold
GAPIT
p-value
GWAS
updated 5 days ago by
ginellegrenier
• 0 • written 4 months ago by
Clayton
• 0
3
votes
4
replies
337
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
4 days ago by
QX
• 0
2
votes
1
reply
228
views
Finding orthologs between genome error
OMA
OMAbrowser
updated 5 days ago by
Adrian Altenhoff
★ 1.1k • written 6 days ago by
hemantcnaik
• 0
0
votes
0
replies
148
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
5 days ago by
Aspire
▴ 300
2
votes
5
replies
332
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
1 day ago by
analyst
▴ 30
0
votes
3
replies
287
views
Highest variable features in single cell data
single-cell
updated 3 days ago by
bk11
★ 2.4k • written 5 days ago by
Kazo
▴ 10
0
votes
1
reply
215
views
Network Alignment
plugin
Cytoscape
CytoMCS
updated 5 days ago by
Scooter
▴ 280 • written 6 days ago by
Akash D
▴ 40
2
votes
4
replies
2.4k
views
How could I generate a gi_taxid_nucl.dmp file similar to the one previously hosted by NCBI?
ncbi
metagenomics
centrifuge
gi_taxid_nucl.dmp
taxonomy
updated 5 days ago by
ZhangYuanfeng
• 0 • written 2.4 years ago by
Frazier Baker
• 0
1
vote
3
replies
349
views
PCA plot
DESeq2
PCAplot
updated 1 day ago by
LauferVA
4.2k • written 5 days ago by
Aaliya
▴ 10
4
votes
4
replies
417
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
updated 3 days ago by
BioinfGuru
★ 1.7k • written 5 days ago by
Ming Tommy Tang
★ 3.9k
0
votes
4
replies
2.7k
views
Lositan freezing when generating selection table
LOSITAN
updated 5 days ago by
evawillms183
• 0 • written 8.3 years ago by
andrepleao
• 0
0
votes
0
replies
145
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
5 days ago by
4fzcgueyp5
• 0
2
votes
3
replies
325
views
clustalo - align milions of short seq, memory issue
memory
clustalo
updated 7 days ago by
Mensur Dlakic
★ 27k • written 8 days ago by
emmanouil.a
▴ 120
0
votes
2
replies
252
views
Annovar using R package
Annovar
gnomAD
R
4 days ago by
DKA
▴ 40
0
votes
2
replies
230
views
Creating Synthetic Sequences for a ML Model
DNA
ML
updated 5 days ago by
Mensur Dlakic
★ 27k • written 5 days ago by
biochugs
• 0
8
votes
8
replies
610
views
PCA plot (Suggestions Needed)
DESeq2
PCAplot
updated 5 days ago by
swbarnes2
14k • written 6 days ago by
Aaliya
▴ 10
1
vote
8
replies
826
views
Adding CB tag to bam file
samtools
bam
updated 5 days ago by
Pierre Lindenbaum
161k • written 11 days ago by
Maria
• 0
1
vote
10
replies
960
views
Troubleshooting RNA-seq data with DNA contamination
RNA-seq
DESeq2
DNA-contamination
5 days ago by
DKA
▴ 40
0
votes
2
replies
817
views
AGeNT LocatIt
AGeNT
LocatIt
WES
UMI
duplicates
updated 6 days ago by
barslmn
★ 2.1k • written 2.8 years ago by
jhy
▴ 10
0
votes
5
replies
345
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 5 days ago by
GenoMax
141k • written 6 days ago by
Bertalan_Takacs
▴ 90
0
votes
0
replies
140
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 5 days ago by
Ram
43k • written 6 days ago by
glaciya2018
• 0
0
votes
0
replies
306
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
6 days ago by
pramach1
▴ 40
0
votes
13
replies
3.5k
views
6 follow
Tax4Fun2 - error
tax4fun
silva
blast
updated 6 days ago by
drstalinantony28
• 0 • written 2.2 years ago by
ymj
▴ 10
0
votes
1
reply
161
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 6 days ago by
Sofia
• 0 • written 6 days ago by
mawigoj318
• 0
0
votes
0
replies
142
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
6 days ago by
salias
• 0
4
votes
7
replies
475
views
To get p-values for the TPM
P-value
TPM
RSEM
updated 5 days ago by
dsull
★ 5.9k • written 6 days ago by
VITALA
• 0
0
votes
5
replies
345
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
updated 3 days ago by
Istvan Albert
100k • written 6 days ago by
sehriban.buyukkilic
▴ 10
0
votes
0
replies
121
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 5 days ago by
Ram
43k • written 6 days ago by
newuser2024
• 0
1
vote
2
replies
231
views
alignment result
RNA-seq
samtools
hisat2
5 days ago by
ahmad.sajad4541
• 0
0
votes
0
replies
117
views
News:
hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models
GLM
R
updated 5 days ago by
Ram
43k • written 6 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
105
views
Is result interpretation of the modelHomotypic function of the DoubletFinder correct?
doublet
DoubletFinder
Seurat
modelHomotypic
updated 5 days ago by
Ram
43k • written 6 days ago by
Jeyong
• 0
0
votes
2
replies
230
views
Wilcox test using data slot (log normalized count values) of scRNA-seq between two groups
scRNAseq
6 days ago by
mropri
▴ 150
2
votes
2
replies
228
views
HaplotypeCaller - only SNPs
HaplotypeCaller
GATK
updated 6 days ago by
analyst
▴ 30 • written 6 days ago by
lorena9132
• 0
0
votes
0
replies
113
views
AttributeError: module 'scvelo' has no attribute 'pp
loomfile
scvelo
scipy
annData
numpy
6 days ago by
Kash
▴ 110
7
votes
2
replies
275
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 6 days ago by
geneontologyhelp
▴ 390 • written 8 days ago by
catherine.teyssier
• 0
1
vote
1
reply
216
views
Blasting two protein sequences vs two nucleotide sequences
gene-hunting
blast
updated 6 days ago by
Istvan Albert
100k • written 8 days ago by
Abeer
• 0
1,114 results • Page
3 of 23
Recent Votes
CTO/founding engineer role at Voyant Bio
Programmatically retrieving positions of protein active site residues
Programmatically retrieving positions of protein active site residues
A: Can Biopython Properly Import Fasta Headers With Spaces In Them?
Programmatically retrieving positions of protein active site residues
Answer: Polishing genome assembly
Answer: Integrate transcriptomic data and proteomics data.
Recent Locations •
All
United States,
just now
United States,
2 minutes ago
United States,
2 minutes ago
United States,
6 minutes ago
Greece,
9 minutes ago
Turkey,
10 minutes ago
United States,
13 minutes ago
Recent Awards •
All
Popular Question
to
Jonathan Yoou
▴ 60
Popular Question
to
Chris
▴ 260
Commentator
to
Lluís R.
★ 1.2k
Popular Question
to
miles.anderson
▴ 10
Popular Question
to
kamhamea
• 0
Teacher
to
ATpoint
82k
Popular Question
to
fanglujing
▴ 60
Recent Replies
Comment: KEGG Pathways
by
Ram
43k
Give us as much detail as you can. What error does it give you?
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
GenoMax
141k
SRA Run Selector shows a better view of the metadata: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA761679&o=acc_s%3Aa
Comment: Adjust pvalue in R with different approach give me all different outcome
by
Aspire
▴ 300
- p.adjust() is supposed to receive a **numeric vector of p-values**, not a matrix. - It makes no sense to "adjust" just one p-value, as…
Comment: Downsampling fastq file
by
marco.barr
▴ 80
I understood where the problem lies. I discussed with my wet lab colleagues (this is part of a bioinformatician's job...) and by showing th…
Comment: Programmatically retrieving positions of protein active site residues
by
me
▴ 760
This question fits in nicely with the [SIB Swiss Institute of Bioinformatics course on Enzyme information in UniProt][1] [1]: https://w…
Answer: Programmatically retrieving positions of protein active site residues
by
me
▴ 760
This can be done via SPARQL at the UniProt.org sparql endpoint PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> PREFIX fald…
Comment: KEGG Pathways
by
Sudip
• 0
No it does not. Do you know of a way that can help me achieve what I want?
Comment: Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x
by
GenoMax
141k
UniRef file is 43G compressed so probably will become ~60G when uncompressed. You would likely be looking at at least that much +10-20% GB …
Comment: RNAseq one control two conditions, shared and exclusive genes
by
matteo.levorato
• 0
thank you for your comment, but yes running DESeq2 is the starting point. dds <- DESeqDataSetFromMatrix(countData=RawCounts, …
Comment: Need help for downloading arabdopsis thaliana reference genome fasta file and gt
by
Ram
43k
Please stop pasting a sentence in the `tags` field. That field is for subject matter keywords. I've fixed your posts this time, please be m…
Comment: KEGG Pathways
by
Ram
43k
> is the below code correct Does it give you what you need?
Comment: from row count to tpm
by
Ram
43k
Hi https://www.biostars.org/u/119503/ Why did you delete this post?
Comment: ERROR When Using Ensembl Plants Biomart Wget API
by
GenoMax
141k
A couple of hours back using `plants.ensembl.org` was generating a 504 error but it seems to be working now. wget -O result.txt 'http…
Comment: why renaming Idents in Seurat object doesn't work?
by
Assa Yeroslaviz
★ 1.8k
Don't understand this comment. I don't have any columns with this name.
Answer: ERROR When Using Ensembl Plants Biomart Wget API
by
Ben_Ensembl
★ 2.4k
Hi Dora, For plant species such as *A. thalina*, you should use the http://plants.ensembl.org/biomart service, so the start of your wget…
Traffic: 2436 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