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120,741 results • Page
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How to plot LMER estimate values in heatmap ?
cell
scRNAseq
TF
lmer
transcription
just now by
carolofharvest
▴ 50
1
vote
2
replies
361
views
News:
Final Call - Next-Generation Sequencing Data Analysis: A Practical Introduction (April 2-4 in Munich) - Only 2 seats left
Workshop
RNAseq
Variant-Calling
Illumina
DNAseq
1 hour ago by
ecSeq Bioinformatics
▴ 10
0
votes
1
reply
48
views
Guidance Needed: Best Practices for Handling Technical Replicates in RNA-seq Analysis
rnaseqanalysisalysis
DESeq2
tehnicalreplicates
nobiologicalreplicates
RNA-Seq
updated 3 hours ago by
ATpoint
87k • written 3 hours ago by
hellothere
• 0
0
votes
1
reply
41
views
Can anyone help me download the dbSNP data for Bos taurus ARS-UCD1.3?
bioinformatics
GWAS
genetics
WGS
updated 1 hour ago by
Arup Ghosh
3.3k • written 5 hours ago by
K
• 0
0
votes
1
reply
101
views
Co-expression analysis of miRNAs and target mRNAs
miRNA
targets
co-expression
miRNA-mRNA
updated 10 hours ago by
i.sudbery
21k • written 19 hours ago by
baibhu1234
▴ 40
0
votes
0
replies
69
views
Beagle Imputation
Beagle
Imputation
17 hours ago by
mahlet.teka
• 0
835
votes
169
replies
170k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 6 months ago by
Biostar
3.4k • written 8.3 years ago by
Istvan Albert
102k
0
votes
1
reply
84
views
VEP won't show symbols for all variants; SnpEff will, but won't for others
vep
snpeff
updated 9 hours ago by
Ram
45k • written 17 hours ago by
mary.v.volkova
▴ 10
0
votes
0
replies
190
views
Issue with bam-readcount and fpfilter.pl: Saying "failed to get readcounts for variant allele"
bam-readount
somaticsniper
updated 18 hours ago by
Pierre Lindenbaum
165k • written 18 hours ago by
1phamcha2
• 0
2
votes
1
reply
98
views
miRNA-seq: QC reports and workflow
miRNA-seq
ION-Torrent
RNA-seq
FASTQC
updated 17 hours ago by
GenoMax
150k • written 18 hours ago by
omicon
▴ 40
1
vote
0
replies
64
views
How to Run Large-Scale Foldseek Comparisons (Human vs. C. elegans)
c.elegans
Foldseek
Genes
Orthologs
Homologs
18 hours ago by
bioinformatics_rk
▴ 10
0
votes
3
replies
185
views
Is there too little variation to detect meaningful gene changes?
DESEQ
updated 19 hours ago by
swbarnes2
14k • written 1 day ago by
Megan
▴ 50
0
votes
1
reply
151
views
Recommendations for Reference-guided de novo assembly assembly approaches or pipelines?
ont
assembly
wgs
nanopore
genomics
updated 19 hours ago by
shelkmike
★ 1.5k • written 2 days ago by
Mark
▴ 30
0
votes
1
reply
119
views
Per Base Sequence Content FastQC
RNA-seq
quality-control
updated 19 hours ago by
shelkmike
★ 1.5k • written 1 day ago by
Ariadna
▴ 20
3
votes
2
replies
170
views
Seeking Advice on Handling Multiple Datasets for Differential Analysis in Transcriptomics
Data-Integration
Differential-Analysis
Transcriptomics
Data-Normalization
6 hours ago by
Riley J
• 0
2
votes
2
replies
122
views
Population genetics with mutect2 data
haplotypecaller
mutect2
18 hours ago by
slzr_
• 0
1
vote
2
replies
117
views
ggplot of two data set with different colors
geom_line
scale_colour_manual
ggplot2
updated 21 hours ago by
Watermelon
• 0 • written 22 hours ago by
gogeni5529
▴ 60
1
vote
2
replies
153
views
Gene to use for phylogenic analysis
phylogenic-analysis
updated 19 hours ago by
Ram
45k • written 1 day ago by
uttkarsh
• 0
0
votes
0
replies
71
views
Chrom3D
chrom3d
interchromosomal
genome
model
1 day ago by
desptsp
• 0
0
votes
1
reply
90
views
Scanpy use with reticulate in R : var_group_positions argument set up
R
Reticulate
Scanpy
1 day ago by
ZheFrench
▴ 590
1
vote
3
replies
146
views
CPTAC Data analysis
CPTAC
proteomics
updated 20 hours ago by
LauferVA
4.5k • written 1 day ago by
jain72744
▴ 10
78
votes
13
replies
41k
views
10 follow
hg19 Centromere Position and Chromosome Length
centromere
ucsc
updated 19 hours ago by
Ram
45k • written 14.5 years ago by
Jdk
▴ 260
0
votes
3
replies
147
views
How to Process Multiple SRRs for the Same BioSample ?
GEO
RNA-seq
NCBI
miRNAs
RNA
updated 1 day ago by
GenoMax
150k • written 1 day ago by
omicon
▴ 40
0
votes
3
replies
152
views
Methylation cpg probes annotation
annotation
methylation
cpg
TCGA
updated 1 day ago by
GenoMax
150k • written 1 day ago by
jain72744
▴ 10
1
vote
2
replies
259
views
How to convert .ab1 to fastq
Fastq
updated 1 day ago by
size_t
▴ 120 • written 2 days ago by
dr.suvarnakapale
• 0
1
vote
3
replies
168
views
Efficient Gene Prediction on Large Eukaryotic Genomes
tools
prediction
gene
updated 1 day ago by
colindaven
7.3k • written 1 day ago by
Shuo
• 0
0
votes
1
reply
121
views
How to deal with missing annotations in RNASeq data?
eggnogmapper
RNASeq
updated 23 hours ago by
dthorbur
★ 2.9k • written 1 day ago by
v.berriosfarias
▴ 140
0
votes
1
reply
162
views
PPI Network Analysis of Virulence Genes in Morganella morganii Using STRING Database
PPI
STRING
updated 1 day ago by
Mensur Dlakic
★ 29k • written 2 days ago by
bioinfo_enthusiast
• 0
0
votes
2
replies
151
views
Why protein sequence from AUGUSTUS can't find in blast
genome
AUGUSTUS
galaxy
annotation
9 hours ago by
Jl
• 0
1
vote
2
replies
162
views
How to make amazing UMAP to spatialPlot GIF
umap
spatial
23 hours ago by
noodlejackson
▴ 40
0
votes
0
replies
99
views
Software for visualizing mass spectromety spectra
MS
Mass
Spectrometry
1 day ago by
emalekos
▴ 40
1
vote
2
replies
185
views
Feedback Wanted: GenAnalyzer - Web App for Protein Sequence Analysis & Mutation Detection
feedback
tool
15 hours ago by
genanalyzer24
• 0
1
vote
1
reply
149
views
Detecting Aneuploidy from Bulk RNA-Seq Data
Aneuploidy
RNA-Seq
updated 1 day ago by
ATpoint
87k • written 1 day ago by
bioinfo1990
• 0
2
votes
1
reply
926
views
How to perform PPI network analysis in STRING for newly sequenced bacterial genome ?
Proteomics
cytoscape
network
STRING
updated 2 days ago by
bioinfo_enthusiast
• 0 • written 3.8 years ago by
Kumar
▴ 120
0
votes
0
replies
123
views
GSA genome studio call rate calculation issues
Genome
GSA
studio
2 days ago by
1769mkc
★ 1.2k
0
votes
2
replies
286
views
Parsing BAM file per cell from Smart-Seq2 dataset
starsolo
star
BAM
smartseq2
alignment
updated 3 days ago by
dsull
★ 7.3k • written 3 days ago by
brutonk
• 0
0
votes
0
replies
158
views
News:
Spring School in Bioinformatics - online, March 31 to April 4
Singularity
NGS
RNAseq
Phylogenomics
Docker
3 days ago by
Physalia-courses
★ 2.6k
2
votes
2
replies
294
views
Gene Expression Timeline Analysis for N=1
Analysis
Gene
Expression
17 hours ago by
ATRX
★ 1.2k
0
votes
1
reply
453
views
Interactive UMAP for scRNA-seq Data
HTML
RMarkdown
Interactive-UMAP
scRNA-seq
updated 3 days ago by
S
• 0 • written 4 weeks ago by
s
• 0
0
votes
0
replies
160
views
Converting PLINK GWAS Summary Statistics (--glm) to BED Format for UCSC Liftover
PLINK
LiftOver
PLINK2
BED
GWAS
1 day ago by
Mllepnos
• 0
2
votes
0
replies
158
views
Tool:
PAN-GO Functionome: known functions of all human protein-coding genes
goenrichment
function
GO
goterms
geneontology
3 days ago by
geneontologyhelp
▴ 460
0
votes
0
replies
172
views
Can I combine segment results from Sequenza and cnvkit?
CNV
sequenza
cnvkit
3 days ago by
Ram
45k
2
votes
1
reply
280
views
How to clarify results from an HLA association analysis - Omnibus tests/HATK/other options
Omnibus
HLA
HATK
GWAS
Regression
updated 3 days ago by
grover.sandeep
▴ 20 • written 5 days ago by
s.may-wilson
▴ 50
0
votes
0
replies
171
views
News:
Multi-Omics Integration with Machine Learning — Online Course!
Machine-Learning
Multi-Omics
Depp-Learning
Data-Integration
BigData
3 days ago by
Physalia-courses
★ 2.6k
3
votes
2
replies
277
views
Alignment algorithm for DNA sequencing
sequencing
data
DNA
updated 3 days ago by
ATpoint
87k • written 3 days ago by
QX
▴ 70
0
votes
1
reply
234
views
RepeatMasker UCSC track
RepeatMasker
updated 3 days ago by
Michael
55k • written 4 days ago by
frarodmar17
• 0
0
votes
0
replies
184
views
rarefaction curve metagenomic reads show species saturation around 100 000 reads
metagenomics
rarefaction
kraken2
4 days ago by
rDNA
▴ 20
0
votes
4
replies
513
views
Help with CIBERSORTx Error in Single-Cell RNA-seq Analysis: Invalid 'times' Argument
cibersortx
updated 3 days ago by
jared.andrews07
★ 18k • written 6 days ago by
Pumla
• 0
9
votes
21
replies
7.9k
views
12 follow
BLAST Database error: Database memory map file error
makeblastdb
updated 4 days ago by
bagdevi.mishra
▴ 110 • written 6 months ago by
Martina
• 0
0
votes
2
replies
272
views
Looking up gene name from mRNA ID using biomaRt
R
mRNA
biomaRt
updated 3 days ago by
Ram
45k • written 4 days ago by
Khôi
• 0
120,741 results • Page
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Comment: Differential methylation rate analysis using modkit for m6A
by
doramora
▴ 10
Hi! Why did you want to make a 20 reads threashold? (*Nvalid_cov" as >=20 reads) Are you making any filtering for percent modified ((Nmod /…
Comment: Can anyone help me download the dbSNP data for Bos taurus ARS-UCD1.3?
by
Arup Ghosh
3.3k
https://ftp.ensembl.org/pub/release-113/variation/gvf/bos_taurus/ Source: https://www.ensembl.org/Bos_taurus/Info/Index
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ecSeq Bioinformatics
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Merge the fastq files immediately. Sequencing the same pool of cDNA is commonly not considered a source of batch effect. That was asked man…
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I work on viruses/bacteria, completely different field.
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Hello! I’m currently delving into the realm of transcriptome meta-analysis and have encountered some issues that have been causing me quite…
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• 0
Thank you for your reply and suggestion. The term "non-raw" data means that it is not the counts data. For example, some expression profile…
Comment: VEP won't show symbols for all variants; SnpEff will, but won't for others
by
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45k
Go with either, just mention which one you use and what version of it you're using. Personally, I go with VEP because it's been historicall…
Comment: Why protein sequence from AUGUSTUS can't find in blast
by
Jl
• 0
I used non-redundant protein sequence (nr) in blastp. Galaxy only allowed tick options and upload files, I didn't use hints and specify pre…
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by
i.sudbery
21k
My vote in these situations is generally `rlog` or `vst`. They implement both library size normalisation and variance stabilisation. I woul…
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by
caidyn.c.j
• 0
Hi, I am having this same problem as OP right now. When I do the echo $PATH command, it returns: /Users/chachonos/sratoolkit.3.0.0-ma…
Comment: Feedback Wanted: GenAnalyzer - Web App for Protein Sequence Analysis & Mutation
by
genanalyzer24
• 0
You're right, thanks for catching that. Here it is: https://genanalyzer.pythonanywhere.com/. Let me know what you think :)
Comment: Gene Expression Timeline Analysis for N=1
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★ 1.2k
Thanks for all the inputs.
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150k
Since you have publications associated with this data (based on your last thread and a question before that) don't try to do this analysis …
Comment: Population genetics with mutect2 data
by
slzr_
• 0
Thank you so much, you were really helpful! Do you think it is possible to do some kind of analysis to evaluate positive selection or mainl…
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