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116,494 results • Page
2 of 2330
Sort: Rank
Rank
Views
Votes
Replies
1
vote
0
replies
143
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
1 day ago by
Novogene
▴ 420
0
votes
1
reply
393
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 1 day ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
3
votes
3
replies
448
views
Korean human genome reference file
GWAS
reference
imputation
1 day ago by
SeoGyun
• 0
3
votes
4
replies
415
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
updated 1 day ago by
GenoMax
141k • written 1 day ago by
n_navy
• 0
0
votes
0
replies
137
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 1 day ago by
Ram
43k • written 1 day ago by
bioinfo223
▴ 10
0
votes
0
replies
147
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
1 day ago by
P.
• 0
0
votes
0
replies
143
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
1 day ago by
ekirsch
• 0
1
vote
1
reply
324
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
11 hours ago by
renan.igor
• 0
1
vote
1
reply
226
views
Pediococcus acidilactici sequence analysis
BLAST
Gene-Ontology
updated 1 day ago by
Ram
43k • written 2 days ago by
anasjamshed
▴ 120
3
votes
1
reply
582
views
What is the normalization status of metabric data?
metabric
normalization
microarray
cbioportal
updated 2 days ago by
etiennedanis
▴ 20 • written 19 months ago by
DareDevil
★ 4.3k
0
votes
0
replies
143
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
2 days ago by
synat.keam
▴ 100
0
votes
1
reply
235
views
assembly using CCS, CLR, CCS_CLR sequences together?
assembly
updated 2 days ago by
GenoMax
141k • written 2 days ago by
ycts
• 0
5
votes
4
replies
578
views
DEG analysis of RNA-seq data across multiple tissues and two conditions
RNA-seq
EdgeR
DEGs
DESeq2
1 day ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
253
views
Inconsistency in SNP detection pipelines for multi-sample analysis
vcf
bam
bcf
snps
updated 2 days ago by
LChart
3.9k • written 2 days ago by
George
▴ 10
0
votes
4
replies
514
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
22 hours ago by
Kai Xin
• 0
1
vote
1
reply
205
views
Retrieve a % coverage for each transcript
RNA-seq
updated 2 days ago by
Ram
43k • written 2 days ago by
jammydodger123456
▴ 40
0
votes
1
reply
323
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 2 days ago by
Klaus S
▴ 150 • written 7 days ago by
Zeng Hao
▴ 40
0
votes
2
replies
328
views
How can I solve this error?
metal
2 days ago by
22211020193
• 0
0
votes
0
replies
149
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 2 days ago by
GenoMax
141k • written 2 days ago by
srimmer
• 0
1
vote
2
replies
242
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 2 days ago by
Ram
43k • written 2 days ago by
aniigodwinn
• 0
2
votes
3
replies
376
views
Sheep reference genome remapping coordinates
reference
remap
sheep
coordinates
genome
1 day ago by
valentinatsar
• 0
2
votes
3
replies
255
views
Editing Human Reference Genome by adding a CDS
gff
agat
transcriptome
updated 2 days ago by
Michael
54k • written 2 days ago by
LDT
▴ 330
2
votes
10
replies
633
views
Questions about a bug when transferring cram file to bam file
sequence
samtools
bcftools
updated 1 day ago by
GenoMax
141k • written 2 days ago by
me
• 0
2
votes
2
replies
355
views
differential gene expression analysis when not all samples have an untreated counterpart
differential-expression
edgeR
1 day ago by
nhaus
▴ 300
0
votes
0
replies
296
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
2 days ago by
Ronin
• 0
4
votes
2
replies
1.7k
views
How to convert SAM/BAM file to GTF/GFF file?
GTF
SAM
BAM
GFF
minimap2
updated 2 days ago by
Dr.Animo
▴ 130 • written 11 months ago by
BioinfoBee
• 0
2
votes
7
replies
732
views
Removing duplicates
duplicates
ONT
minimap2
updated 1 day ago by
joe
▴ 510 • written 2 days ago by
quentinperriere
• 0
0
votes
1
reply
170
views
Annotating a dataset with gnomAD v4 using Hail
Python
Sequencing
Hail
Exome
Annotation
updated 2 days ago by
DKA
▴ 40 • written 2 days ago by
james.melhorn
• 0
3
votes
4
replies
374
views
biomaRt error for different R version
biomaRt
R
updated 1 day ago by
GenoMax
141k • written 2 days ago by
manaswwm
▴ 490
0
votes
1
reply
160
views
Freyja plot error
Freyja
updated 2 days ago by
Ram
43k • written 2 days ago by
Adyasha
• 0
1
vote
2
replies
171
views
Interpretation of combined P values - RNA microarray meta analysis
metaanalysis
R
microarray
DExMA
combinedP
2 days ago by
hagl
▴ 10
0
votes
0
replies
133
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
2 days ago by
chemokine-1
▴ 10
0
votes
4
replies
440
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
1 day ago by
feather-W
• 0
0
votes
0
replies
198
views
Job:
Consultant to update a Snakemake workflow with the new Kubernetes executor plugin for Snakemake 8
Kubernetes
DevOps
executor
AWS
Snakemake
updated 2 days ago by
Michael
54k • written 2 days ago by
jonrkarr
▴ 100
0
votes
2
replies
185
views
Bedmethyl file format
bedmethyl
methylation
updated 2 days ago by
GenoMax
141k • written 2 days ago by
njornet
▴ 20
0
votes
0
replies
151
views
sequence table for DADA2 chimera filtering
OTU
sequencetable
DADA2
2 days ago by
Ali
• 0
2
votes
4
replies
281
views
SnpEff annotates coding duplication as intronic?
snpeff
2 days ago by
kirill.zaslavsky
• 0
0
votes
2
replies
217
views
Calculating percentage of cells proliferating in single cell rna seq data
statistics
scRNA-seq
proliferation
2 days ago by
mropri
▴ 150
5
votes
4
replies
2.8k
views
genefu for PAM50 prediction
RNA-Seq
breast cancer
subtyping
updated 3 days ago by
hamarillo
▴ 70 • written 5.6 years ago by
silviajserrano
▴ 50
3
votes
10
replies
577
views
Piping samtools to R
R
NGS
bash
samtools
3 days ago by
joe
▴ 510
2
votes
2
replies
210
views
How to filter columns in a raw sparse matrix in R
matrix
R
updated 3 days ago by
bk11
★ 2.3k • written 3 days ago by
bgbs
• 0
3
votes
7
replies
395
views
Integration of transcriptomics and proteomics: difficult matching names
rna-seq
tmt
nomenclature
proteomics
3 days ago by
ntsopoul
▴ 60
0
votes
0
replies
130
views
Input into WGCNA and Error on constructNetworks on RNA-Seq data - unique rownames
rownames
RNA-Seq
WGCNA
unique
3 days ago by
shasabhi1
• 0
0
votes
0
replies
123
views
How to summarize dbCAN3 results
dbCAN
CAZy
CAZyme
dbCAN3
dbCAN2
3 days ago by
Nishat
• 0
3
votes
3
replies
384
views
trouble using sequenceTubeMap in chromium installed on WSL
vg
3 days ago by
ayushm64
• 0
0
votes
0
replies
136
views
what exactly is a k-mer table (remora)?
remora
basecall
3 days ago by
anne
• 0
3
votes
6
replies
10k
views
List of species in RepeatMasker Tool (species parameter)
RepeatMasker
Masking
updated 3 days ago by
Bioinfotec
▴ 10 • written 7.5 years ago by
nut_B
▴ 10
1
vote
6
replies
351
views
Rename multiple fastq.gz files
fastq
next-gen
updated 3 days ago by
shenwei356
8.4k • written 3 days ago by
Jérémie
• 0
1
vote
1
reply
158
views
Help/Direction Needed for Data Analysis of RNA
Sequencing
RNA-seq
DNA-Seq
updated 3 days ago by
dsull
★ 5.8k • written 3 days ago by
niruf
• 0
0
votes
0
replies
158
views
Job:
Ensembl Outreach Project Leader
ebi
embl
genomics
ensembl
3 days ago by
Ben_Ensembl
★ 2.4k
116,494 results • Page
2 of 2330
Recent Votes
bcftools multiple commands
bcftools pipe generated file from first command with second
C: How to setup a Summarized Experiment
A: How to download genome assemblies from NCBI with a list of GCA identifiers?
what's the genomic location and name of gene responsible for orange and black patches in calico cats
Comment: featureCounts --primary tag counting uniquely mapped reads and excludes multi-ma
Answer: Duplicate marking, read names, and the SRA
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Recent Awards •
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Scholar
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Ann
★ 2.4k
Popular Question
to
Rodolfo Adrián
• 0
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damian.szk
▴ 70
Popular Question
to
alphaflylizard
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GenoMax
141k
Popular Question
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Shicheng Guo
★ 9.4k
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DanielEB_fisk
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Recent Replies
Answer: GTF file from Stringtie to R Studio for either Ballgown or DESeq2
by
Ram
43k
See this section on how to use tximport to import StringTie output for DESeq2 processing: https://bioconductor.org/packages/devel/bioc/vign…
Comment: how to find genes that are significantly expressed in brain cortex samples
by
Ram
43k
Can you explain the normalization or give me a link that describes it, please? Comparison across samples will always be caveated as RNA-seq…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
Ram
43k
Sorry, I see how harsh I come across. It's not good practice to use multiple versions of R in the same project. I can understand legacy pro…
Answer: MEGA Analysis Issue on High-Performance Computer
by
Mensur Dlakic
★ 27k
> I have ensured that I am using the latest version of MEGA and that other applications are not consuming excessive resources during the an…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
BioinfGuru
★ 1.7k
Some of us are still learning and fall foul to knowledge limitation fairly regularly. Luckily we have people to put us in our place.
Answer: Running blastp with BLAST+ 2.15.0 against custom database; need to identify hits
by
GenoMax
141k
> I know that I should be able to collect protein sequences from the blastp results into a file, but I do not know how to do this. You c…
Comment: how to find genes that are significantly expressed in brain cortex samples
by
rheab1230
▴ 140
I got the normalized gene count from gtex portal. they use inverse quantile normalization
Comment: what's the genomic location and name of gene responsible for orange and black pa
by
Matthias Zepper
4.5k
It is not entirely off, but evidently also not correct. Melanin biosynthesis is a multistep process, that indeed prominently involves the…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
Ram
43k
> so a single Rscript could utilise multiple environments and versions How is that sane, let alone "better"? Also, why use `snap` for curl…
Comment: how to find genes that are significantly expressed in brain cortex samples
by
Ram
43k
Normalized how?
Comment: Duplicate marking, read names, and the SRA
by
GenoMax
141k
With public data one has to work with what is there. If the information about position is absent then only thing that could be done is to l…
Comment: Installing/switching between versions of R/Rstudio/Bioconductor on personal mach
by
BioinfGuru
★ 1.7k
Or better yet. To have an R package that allows access to conda environments via "conda list env" so that environments can be switched with…
Comment: what's the genomic location and name of gene responsible for orange and black pa
by
GenoMax
141k
If GPT is right then it says that: > The specific gene responsible for the orange and non-orange (black or > gray) fur colors in cats is t…
Comment: what's the genomic location and name of gene responsible for orange and black pa
by
Jean-Karim Heriche
27k
As far as I know the Orange locus hasn't been mapped to a gene. Maybe this paper will help in narrowing the search: https://www.ncbi.nlm.ni…
Comment: Duplicate marking, read names, and the SRA
by
Luka
• 0
>Curios if there a reference for this? [Apparently it's not deprecated yet][1], but will be soon and the SRA intends for it to be at some …
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