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116,708 results • Page
1 of 2335
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edgeR contrasts for analysis of reciprocal hybrid crosses - averaging, pooling, and comparing groups
edgeR
just now by
Rhiannon
• 0
0
votes
1
reply
25
views
How to perform single cell multimodal integration using Seurat for Geo datasets
cell
analysis
multimodal
single
updated 54 minutes ago by
ATpoint
82k • written 1 hour ago by
nithya
• 0
0
votes
0
replies
20
views
Download eQTL data of one specific gene for all tissues from GTEx
eQTL
GTEx
2 hours ago by
Jeol
▴ 20
0
votes
0
replies
22
views
Successfully identified and Masked rpeats using RM. What Next?
sequence
annotation
repeatmasker
illumina
assembly
2 hours ago by
Vijith
▴ 30
1
vote
5
replies
192
views
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 3 hours ago by
Mensur Dlakic
★ 27k • written 16 hours ago by
nicole.kavanagh
• 0
0
votes
1
reply
202
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
updated 4 hours ago by
Scooter
▴ 280 • written 6 days ago by
avocado123
• 0
0
votes
0
replies
28
views
Combining Methylation Microarray data from different platforms
Microarray
DNA
EPIC
450K
Methylation
5 hours ago by
James
▴ 10
0
votes
1
reply
520
views
Basic stats in hierfstat
Fst
stats
hierfstat
updated 6 hours ago by
mdav
• 0 • written 18 months ago by
Zoe
• 0
1
vote
2
replies
65
views
Odd alignment question/finding
Alignment
updated 51 minutes ago by
ATpoint
82k • written 6 hours ago by
poordumbsillyidiot
• 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
119
views
GATK won't produce figures while analyzing covariates to generate 'recal_plots.pdf'
GATK
recalibration
updated 7 hours ago by
GenoMax
141k • written 11 hours ago by
mgranada3
▴ 30
0
votes
0
replies
46
views
Tassel 5 GBS: GBSSeqToTagDBPlugin producing empty database
GBS
Tassel5
12 hours ago by
meck
• 0
0
votes
0
replies
69
views
Looking for the best way to interpret these data
RNA-seq
ontology
GO
updated 10 hours ago by
Ram
43k • written 12 hours ago by
Oscar
▴ 10
0
votes
6
replies
389
views
Post-imputation plot
michigan-imputation-server
quality-control
10 hours ago by
kl
▴ 10
0
votes
1
reply
159
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 14 hours ago by
Adam
▴ 30 • written 1 day ago by
J
• 0
1
vote
3
replies
231
views
DESeq2 processing problems
deseq2
R
updated 14 hours ago by
ATpoint
82k • written 1 day ago by
jagdish7921
• 0
0
votes
1
reply
728
views
cnetplot category names are too long
RNASeq
clusterprofiler
cnetplot
enrichplot
updated 15 hours ago by
bkleiboeker
▴ 370 • written 2.7 years ago by
carov
• 0
0
votes
1
reply
89
views
Mutect2 for mitochondria variant discovery
mutect2
mitochondria
updated 14 hours ago by
Ram
43k • written 16 hours ago by
ernestine.kubi
• 0
0
votes
0
replies
59
views
Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
16 hours ago by
VITALA
• 0
1
vote
2
replies
182
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
3 hours ago by
rianna.collins
• 0
0
votes
1
reply
132
views
Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
rna-seq
updated 22 hours ago by
i.sudbery
19k • written 1 day ago by
Edmond
• 0
0
votes
0
replies
100
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
333
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
219
views
p-value in CIBERSORT
CIBERSORT
p-value
23 hours ago by
michelafrancesconi9
▴ 20
0
votes
5
replies
301
views
Telescope issue
Telescope
RNA-seq
updated 16 hours ago by
GenoMax
141k • written 1 day ago by
eleven11
• 0
5
votes
6
replies
450
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
192
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
249
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
20 hours ago by
Nafi
• 0
1
vote
3
replies
238
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 1 day ago by
GenoMax
141k • written 1 day ago by
jeffrey.maurer.informatics
• 0
0
votes
2
replies
190
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
updated 1 day ago by
GenoMax
141k • written 1 day ago by
Dora
▴ 10
0
votes
0
replies
137
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
154
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
updated 14 hours ago by
Adam
▴ 30 • written 1 day ago by
Ahiad Chen Zion
• 0
0
votes
4
replies
237
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
107
views
barcode of TCR-sequencing
barcode
1 day ago by
yueli7
▴ 250
0
votes
0
replies
110
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
106
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 1 day ago by
Alexandros
• 0
0
votes
1
reply
143
views
unable to get feature count results
featureCounts
updated 1 day ago by
Ram
43k • written 1 day ago by
Ravita
• 0
0
votes
0
replies
107
views
Subsetting and merging back Seurat Object brings different results
Seurat
1 day ago by
Bine
▴ 60
0
votes
3
replies
249
views
KEGG Pathways
r
RNA-seq
updated 1 day ago by
Ram
43k • written 1 day 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 1 day ago by
Andres
▴ 20 • written 9.6 years ago by
hermathena
▴ 40
0
votes
0
replies
109
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
1 day ago by
Bine
▴ 60
0
votes
1
reply
261
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
1 day ago by
David Langenberger
11k
0
votes
0
replies
115
views
Force PLINK2 to neglect chrX as the sex chromosome
PLINK2
1 day ago by
8armed
• 0
0
votes
1
reply
167
views
Deseq2
Deseq2
updated 2 days ago by
Jack Tierney
▴ 360 • written 2 days ago by
Sudip
• 0
1
vote
1
reply
200
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 2 days ago by
Michael
54k • written 2 days ago by
Lissa Cruz Saavedra
• 0
5
votes
3
replies
244
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 2 days ago by
Lluís R.
★ 1.2k • written 2 days ago by
이민경[학생](대학원 융합의과학과)
• 0
2
votes
2
replies
176
views
MA plot of shrunken fold change
MA-plot
Deseq2
updated 2 days ago by
ATpoint
82k • written 2 days ago by
Sudip
• 0
1
vote
2
replies
204
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 1 day ago by
Ram
43k • written 2 days ago by
Ravita
• 0
0
votes
0
replies
103
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
2 days ago by
Adyasha
• 0
0
votes
0
replies
106
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
2 days ago by
fanglujing
▴ 60
116,708 results • Page
1 of 2335
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R: Unable to use analyzeFeatures because argument is not a vector
Comment: Odd alignment question/finding
Comment: POSSUM not working due to incompatible pssm file
Comment: Can't install AnnotationHub
C: TOPGO- how to do GO enrichment using a custom go database?
Answer: NGS forensics: how to know if data is fabricated
Comment: Adjust pvalue in R with different approach give me all different outcome
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Recent Replies
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
141k
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
141k
Can you classify the plasmids based on function (resistance genes they are carrying or some other criteria). Sizes above are indicating a w…
Comment: DESeq2 processing problems
by
ATpoint
82k
Initially posted here https://support.bioconductor.org/p/9158036/ where I suggested to put code and data and noted that GEOquery returns ar…
Answer: Post-imputation plot
by
LChart
3.9k
I agree that some need to be flipped (A/T and C/G where your panel frequency is 1 - ref panel frequency). There are other variants which yo…
Comment: RNA editing sites based on DNA seq and RNA seq
by
Adam
▴ 30
Are those 20% unaligned reads coming after hyper-editing detection?
Answer: How to find overlap of clusters in two seurat porject
by
Adam
▴ 30
I think your best bet would be to use annotation mapping. You can use the features of your clusters in group 1 and apply them to group 2 to…
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