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116,713 results • Page
1 of 2335
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0
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1
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14
views
Problem with data downloaded from Short Reads Archive (SRA)
SRA
DADA2
metabarcoding
33 minutes ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
13
views
Use of annotation of integrated Seurat object in single sample
Seurat
59 minutes ago by
Bine
▴ 60
0
votes
0
replies
15
views
Super ehancers
enhancers
1 hour ago by
Oburah
• 0
0
votes
0
replies
13
views
News:
Beyond beginner R: Advancing your coding skills - September 16-19
AdvancedCoding
Programming
R
1 hour ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
132
views
Subsetting and merging back Seurat Object brings different results
Seurat
1 hour ago by
Bine
▴ 60
0
votes
0
replies
33
views
Job:
Postdoctoral Position in Bioinformatics - Mainz, Germany
Biology
R-loops
Genomics
NGS
Post-doc
2 hours ago by
4r-rtg
• 0
1
vote
0
replies
38
views
Discrepancy in read counts from fastq
reads
downsampling
fastq
count
updated 1 hour ago by
ATpoint
82k • written 2 hours ago by
marco.barr
▴ 90
0
votes
0
replies
25
views
edgeR contrasts for analysis of reciprocal hybrid crosses - averaging, pooling, and comparing groups
edgeR
2 hours ago by
Rhiannon
• 0
795
votes
167
replies
142k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
0
votes
1
reply
58
views
How to perform single cell multimodal integration using Seurat for Geo datasets
cell
analysis
multimodal
single
updated 3 hours ago by
ATpoint
82k • written 4 hours ago by
nithya
• 0
0
votes
0
replies
37
views
Download eQTL data of one specific gene for all tissues from GTEx
eQTL
GTEx
5 hours ago by
Jeol
▴ 20
0
votes
0
replies
34
views
Successfully identified and Masked rpeats using RM. What Next?
sequence
annotation
repeatmasker
illumina
assembly
5 hours ago by
Vijith
▴ 30
6
votes
7
replies
260
views
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 39 minutes ago by
Daria
▴ 10 • written 18 hours ago by
nicole.kavanagh
• 0
0
votes
1
reply
213
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
updated 6 hours ago by
Scooter
▴ 280 • written 6 days ago by
avocado123
• 0
0
votes
0
replies
41
views
Combining Methylation Microarray data from different platforms
Microarray
DNA
EPIC
450K
Methylation
7 hours ago by
James
▴ 10
0
votes
1
reply
529
views
Basic stats in hierfstat
Fst
stats
hierfstat
updated 9 hours ago by
mdav
• 0 • written 18 months ago by
Zoe
• 0
1
vote
2
replies
102
views
Odd alignment question/finding
Alignment
updated 3 hours ago by
ATpoint
82k • written 9 hours ago by
poordumbsillyidiot
• 0
0
votes
1
reply
133
views
GATK won't produce figures while analyzing covariates to generate 'recal_plots.pdf'
GATK
recalibration
updated 10 hours ago by
GenoMax
142k • written 14 hours ago by
mgranada3
▴ 30
0
votes
0
replies
50
views
Tassel 5 GBS: GBSSeqToTagDBPlugin producing empty database
GBS
Tassel5
15 hours ago by
meck
• 0
0
votes
0
replies
74
views
Looking for the best way to interpret these data
RNA-seq
ontology
GO
updated 13 hours ago by
Ram
43k • written 15 hours ago by
Oscar
▴ 10
0
votes
6
replies
399
views
Post-imputation plot
michigan-imputation-server
quality-control
13 hours ago by
kl
▴ 10
0
votes
1
reply
165
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 17 hours ago by
Adam
▴ 30 • written 1 day ago by
J
• 0
1
vote
3
replies
239
views
DESeq2 processing problems
deseq2
R
updated 17 hours ago by
ATpoint
82k • written 1 day ago by
jagdish7921
• 0
0
votes
1
reply
732
views
cnetplot category names are too long
RNASeq
clusterprofiler
cnetplot
enrichplot
updated 18 hours ago by
bkleiboeker
▴ 370 • written 2.7 years ago by
carov
• 0
0
votes
1
reply
94
views
Mutect2 for mitochondria variant discovery
mutect2
mitochondria
updated 17 hours ago by
Ram
43k • written 19 hours ago by
ernestine.kubi
• 0
0
votes
0
replies
64
views
Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
19 hours ago by
VITALA
• 0
1
vote
2
replies
194
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
5 hours ago by
rianna.collins
• 0
0
votes
1
reply
136
views
Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
rna-seq
updated 1 day ago by
i.sudbery
19k • written 1 day ago by
Edmond
• 0
0
votes
0
replies
104
views
What open-source tools can determine the coverage/completion of a pathway based on EC numbers?
metagenomics
metacyc
enzyme
pathway
genomics
1 day ago by
O.rka
▴ 710
0
votes
1
reply
350
views
after selecting specific GO terms to plot, cneplot is not showing any color for genes, GO terms and only showing lines without nodes.
cneplot
updated 1 day ago by
Ram
43k • written 1 day ago by
Dr Huma Naz
• 0
2
votes
2
replies
223
views
p-value in CIBERSORT
CIBERSORT
p-value
1 day ago by
michelafrancesconi9
▴ 20
0
votes
5
replies
306
views
Telescope issue
Telescope
RNA-seq
updated 19 hours ago by
GenoMax
142k • written 1 day ago by
eleven11
• 0
5
votes
6
replies
457
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 1 day ago by
me
▴ 760 • written 2 days ago by
Mariana
▴ 40
1
vote
1
reply
199
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 1 day ago by
Ram
43k • written 1 day ago by
Jonathan Yoou
▴ 60
1
vote
2
replies
254
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
23 hours ago by
Nafi
• 0
1
vote
3
replies
243
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 1 day ago by
GenoMax
142k • written 1 day ago by
jeffrey.maurer.informatics
• 0
0
votes
2
replies
194
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
updated 1 day ago by
GenoMax
142k • written 2 days ago by
Dora
▴ 10
0
votes
0
replies
140
views
News:
Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy
Python
NumPy
updated 1 day ago by
Ram
43k • written 1 day ago by
Chakri
• 0
0
votes
1
reply
157
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
updated 17 hours ago by
Adam
▴ 30 • written 1 day ago by
Ahiad Chen Zion
• 0
0
votes
4
replies
242
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
updated 1 day ago by
Michael
54k • written 1 day ago by
Riccardo
▴ 10
0
votes
0
replies
112
views
barcode of TCR-sequencing
barcode
1 day ago by
yueli7
▴ 250
0
votes
0
replies
114
views
News:
Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis
Statistics
R
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
109
views
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
cancer
mutect
variant-calling
GATK
somatic-variants
updated 1 day ago by
Ram
43k • written 2 days ago by
Alexandros
• 0
0
votes
1
reply
147
views
unable to get feature count results
featureCounts
updated 1 day ago by
Ram
43k • written 2 days ago by
Ravita
• 0
0
votes
3
replies
254
views
KEGG Pathways
r
RNA-seq
updated 1 day ago by
Ram
43k • written 2 days ago by
Sudip
• 0
4
votes
6
replies
3.8k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 2 days ago by
Andres
▴ 20 • written 9.6 years ago by
hermathena
▴ 40
0
votes
0
replies
118
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
2 days ago by
Bine
▴ 60
0
votes
1
reply
267
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
2 days ago by
David Langenberger
11k
0
votes
0
replies
119
views
Force PLINK2 to neglect chrX as the sex chromosome
PLINK2
2 days ago by
8armed
• 0
0
votes
1
reply
170
views
Deseq2
Deseq2
updated 2 days ago by
Jack Tierney
▴ 360 • written 2 days ago by
Sudip
• 0
116,713 results • Page
1 of 2335
Recent Votes
Comment: Bacterial plasmid analysis
Unsupervised clustering on gene expression data
Answer: Bacterial plasmid analysis
Answer: Bacterial plasmid analysis
Define enhancer regions
A: how can i download human ribosomal reference ?
Answer: Bacterial plasmid analysis
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Recent Replies
Comment: Problem with data downloaded from Short Reads Archive (SRA)
by
ATpoint
82k
One cannot help you with this. The error is from R, yet you show not a single line of R code.
Comment: Bacterial plasmid analysis
by
Daria
▴ 10
I am the colleague! My tool groups together plasmids based on two genetic distances: containment (how much of the smaller plasmid's sequenc…
Answer: Subsetting and merging back Seurat Object brings different results
by
Bine
▴ 60
Noone has an idea? Thank you!
Answer: Bacterial plasmid analysis
by
shenwei356
8.5k
My colleague has an unpublished tool for plasmid analysis (clustering), and it has really good results. You might have a try. https://githu…
Comment: Odd alignment question/finding
by
ATpoint
82k
bwa mem is not fully deterministic, see from the developer: https://www.biostars.org/p/238628/#238817
Comment: How to perform single cell multimodal integration using Seurat for Geo datasets
by
ATpoint
82k
It's funny that you ask because the paper that these data were used for is called `Integrated analysis of multimodal single-cell data` from…
Comment: Odd alignment question/finding
by
liorglic
★ 1.4k
I can't come up with an explanation, but two things you can try for debugging are: 1) look at the fastp stats - do they add up and make sen…
Answer: Bacterial plasmid analysis
by
Mensur Dlakic
★ 27k
If you put all your sequences in separate files but in the same directory, this program will build a cladogram based on average nucleotide …
Comment: POSSUM not working due to incompatible pssm file
by
rianna.collins
• 0
Thank you so much. I'm new to this and didn't realise there was a code option.
Answer: Is there a way to increase the automatic label text size in Cytoscape?
by
Scooter
▴ 280
Greetings, Are you saying that you can't use the size setting in the style tab? That should certainly work, as should the label size se…
Answer: Basic stats in hierfstat
by
mdav
• 0
Hi Zoe, did you find an answer for this? I am also getting the same error.
Comment: GATK won't produce figures while analyzing covariates to generate 'recal_plots.p
by
GenoMax
142k
Your cluster may be missing libraries etc to create the PDF plots (this looks like a cluster job submission) on your cluster. Did you check…
Comment: Post-imputation plot
by
kl
▴ 10
Ok yes I think my thought was that given these errors, I could remove the mismatches and flip the alleles which seem to need flipping based…
Comment: Bacterial plasmid analysis
by
nicole.kavanagh
• 0
I think I will perhaps use their predominant PlasmidFinder type to group plasmids together and create separate core phylogenies for each as…
Comment: Bacterial plasmid analysis
by
GenoMax
142k
Can you classify the plasmids based on function (resistance genes they are carrying or some other criteria). Sizes above are indicating a w…
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