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122,013 results • Page
295 of 2441
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Votes
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0
votes
0
replies
563
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Mitigating reference bias in genotype calls
reference-bias
genotype-calling
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
Colaptes
▴ 120
2
votes
3
replies
927
views
NCBI general protein information
NCBI
updated 2.6 years ago by
GenoMax
154k • written 2.6 years ago by
100dustedclays
▴ 10
6
votes
7
replies
8.4k
views
How To Calculate Rasa Of Proteins By Residue?
structural-bioinformatics
updated 2.6 years ago by
Jiyao Wang
▴ 380 • written 13.5 years ago by
tesni
▴ 10
0
votes
0
replies
595
views
GenomicRanges: Limit overlaps to one occurrence
R
GenomicRanges
2.6 years ago by
sorrymouse
▴ 120
0
votes
5
replies
2.9k
views
GATK showing error of reference file index
GATK
HaplotypeCaller
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
rj.rezwan
▴ 20
0
votes
4
replies
5.0k
views
How to solve a possible memory issues with Seurat and IntegrateData step?
R
Seurat
scRNAseq
IntegrateData
2.6 years ago by
Vanish007
▴ 50
0
votes
0
replies
509
views
Plot two graphs on different levels on y axis (primary and secondary) using ggplot
ggplot
R
2.6 years ago by
StartR
▴ 30
2
votes
4
replies
2.4k
views
How not to merge R1 and R2 pair-end files in multiqc report
multiqc
fastqc
2.6 years ago by
poecile.pal
▴ 50
2
votes
3
replies
1.3k
views
Visualise a variant position in a gene
visualisation
gene
variant
updated 2.6 years ago by
Ram
45k • written 2.7 years ago by
Giulio
• 0
1
vote
3
replies
1.2k
views
How to do Binding and Expression Target Analysis?
ChIP-seq
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
Dan
▴ 180
0
votes
1
reply
959
views
How to change SNP annotation in minfi function dropLociWithSnps (EPIC methylation array data)?
minfi
dropLociWithSnps
EPIC
updated 20 months ago by
hortensegdt
• 0 • written 2.6 years ago by
Satu
• 0
1
vote
6
replies
1.7k
views
How to use ClusterProfiler
ClusterProfiler
2.6 years ago by
ochiengwycliffe5
• 0
4
votes
8
replies
4.0k
views
6 follow
building snpEff database
snpEff
updated 2.6 years ago by
Ram
45k • written 3.4 years ago by
aabhordia
▴ 30
1
vote
1
reply
1.1k
views
bwa: reads aligned concordantly exactly 1 time
bowtie2
samtools
hisat2
alignment
bwa
2.6 years ago by
poecile.pal
▴ 50
0
votes
3
replies
1.5k
views
Bowtie2 which reference is best ?
Bowtie2
updated 2.6 years ago by
ATpoint
89k • written 2.6 years ago by
Aki
▴ 20
0
votes
2
replies
1.1k
views
Structural variants identified from same reads / assembly
variants
insertion
deletion
structural
assembly
2.6 years ago by
pablo
▴ 350
0
votes
2
replies
1.4k
views
logFC is negative, need help to get it done
Limma
R
updated 2.6 years ago by
i.sudbery
22k • written 2.6 years ago by
Nai
▴ 50
0
votes
0
replies
495
views
Difference between EVmutation and EVcoupling?
EVcouplings
EVmutation
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
xqyjxau
▴ 50
0
votes
2
replies
1.3k
views
Cellranger count creating an empty matrix.mtx after adding 'N' and '#' to R1 UMI and quality respectively to account for 9bp UMI.
scRNA-seq
UMI
cellranger
aligning
2.6 years ago by
JHorder
• 0
0
votes
0
replies
746
views
Z-summary | Finding WGCNA modules that are "absent" from the healthy cells and so "exclusive" to cancer cells ?
Z.summary.pres
hdWGCNA
WGCNA
Zsummary.qual
2.6 years ago by
AKypR
▴ 10
1
vote
2
replies
1.1k
views
In silico evaluation of functional similarity across two sets of genes
functional
annotation
GO
similarity
2.6 years ago by
lessismore
★ 1.4k
1
vote
3
replies
1.3k
views
RNAseq matrix containing zero values
RNA-seq
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
rupali
• 0
0
votes
3
replies
1.3k
views
Third quartile normalized logFC data to find differentially express gene using limma
Limma
R
updated 2.6 years ago by
Basti
★ 2.1k • written 2.6 years ago by
Nai
▴ 50
0
votes
0
replies
511
views
tRNA, piRNA to targeneted gene list converter
genelist
piRNA
tRNA
to
2.6 years ago by
nivedita.home
• 0
2
votes
4
replies
1.3k
views
sRNA seq analysis after trimming adapter
trimmomatic
sRNApipe
sRNAseq
2.6 years ago by
Ramon
• 0
0
votes
2
replies
1.2k
views
SNP annotation with ANNOVAR
SIFT
SNP
annovar
2.6 years ago by
Eliza
▴ 40
1
vote
0
replies
745
views
Tool:
FungiExpresZ: an intuitive package for fungal gene expression data analysis, visualization and discovery
r
gene-expression
RNA-seq
fungi
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
Chirag Parsania
★ 2.0k
1
vote
1
reply
1.2k
views
Lack of LUSC methylation data in SE object
LUSCC
TCGABiolinks
GDCPrepare
2.6 years ago by
aUser
▴ 80
0
votes
2
replies
1.8k
views
forcing read error correction using SPAdes
metagenomics
SPAdes
viromics
2.6 years ago by
jen
▴ 10
1
vote
0
replies
914
views
Job:
Bioinformatics Analyst I, Frederick National Laboratory for Cancer Research - Hybrid Remote/Onsite
bioinformatics-analyst
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
Wendy
▴ 10
0
votes
0
replies
511
views
Choice of relatedness cutoff for GWAS of a large cohort (>100K samples)
relatedness
IBD
GWAS
updated 17 months ago by
Ram
45k • written 2.6 years ago by
Pine
▴ 20
3
votes
1
reply
1.0k
views
Filtering column in R
filter
R
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
CH1374
▴ 10
0
votes
0
replies
470
views
FindConservedMarkers genes order
FindConservedMarkers
2.6 years ago by
Chris
▴ 360
0
votes
4
replies
1.4k
views
SRA toolkit
SRAtoolkit
updated 2.3 years ago by
Ram
45k • written 2.6 years ago by
Shanika
• 0
4
votes
9
replies
9.6k
views
Bioconductor, how to select a subset of samples in an ExpressionSet?
bioconductor
expressionset
subset
updated 2.6 years ago by
GenoMax
154k • written 6.8 years ago by
Davide Chicco
▴ 120
4
votes
7
replies
3.3k
views
RDS file in Rstudio
data
R
RDS
updated 2.6 years ago by
antonioggsousa
3.4k • written 2.6 years ago by
windsur
▴ 20
1
vote
2
replies
1.4k
views
MACS to Signac
scatac-seq
updated 2.6 years ago by
ATpoint
89k • written 2.6 years ago by
bioinformatics.girl
▴ 30
1
vote
1
reply
963
views
MACS Error
scatac-seq
peak-calling
Macs
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
bioinformatics.girl
▴ 30
2
votes
5
replies
1.9k
views
Problem with tximport and plasmodium falciparum
tximport
2.6 years ago by
bioinfo
▴ 160
1
vote
3
replies
3.8k
views
How to make a UMAP for single cell data and color cells by average expression of a list of genes in scanpy?
single-cell
scanpy
RNA-seq
UMAP
2.6 years ago by
bioinfo
▴ 160
3
votes
1
reply
837
views
Paired analysis with sex and age as covariates for SVA
SNM
paired
SVA
expression
updated 2.6 years ago by
ATpoint
89k • written 2.6 years ago by
Curious_Gene
▴ 10
1
vote
5
replies
2.1k
views
How to interpret dotplot from enrichment analysis with gseapy?
gsea
single-cell
gseapy
enrichR
2.6 years ago by
bioinfo
▴ 160
0
votes
1
reply
2.4k
views
Help with MACS2 installation errors
pythom
pip
macs2
updated 2.6 years ago by
josephinedh
• 0 • written 2.6 years ago by
shanshan
• 0
0
votes
0
replies
373
views
MOGSA function error on miniACC dataset
MOGSA
MultiAssayExperiment
R
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
Yifan
• 0
3
votes
3
replies
1.3k
views
How to do differential expression without having replicates
deseq2
RNA-Seq
edgeR
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
minoo
▴ 10
2
votes
6
replies
4.3k
views
Graph using corrplot for multiple sets of data
R
updated 2.6 years ago by
DareDevil
★ 4.4k • written 10.4 years ago by
rvsaras86
• 0
0
votes
0
replies
541
views
mapping or denovo assembly of genome with big diversity (Chlamydomonas)?
Chlamydomonas
spades
soapdenovo
assembly
bwa
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
marine.bergot
• 0
1
vote
1
reply
763
views
linking methylation/SNPs to gene expression
statistics
GWAS
R
epigenetics
updated 2.6 years ago by
Papyrus
★ 3.1k • written 2.6 years ago by
Bioinfonext
▴ 480
2
votes
0
replies
1.1k
views
Herald:
The Biostar Herald for Monday, February 20, 2023
herald
2.6 years ago by
Biostar
3.6k
6
votes
7
replies
5.4k
views
8 follow
Online Interactive Data Visualization
python
updated 2.6 years ago by
lennykovac
▴ 110 • written 12.2 years ago by
Pappu
★ 2.1k
122,013 results • Page
295 of 2441
Recent Votes
Comment: Reading AD and other genotype information from the VCF file
Answer: 1 vs 1 DEG analysis in scrna seq data
Comment: installation of package ‘DESeq2’ had non-zero exit status
Answer: Recommendations for 200 SNP markers genotyping
Comment: Reasonable number of SNPs in a bacterial genome.
The Biostar Handbook. A bioinformatics e-book for beginners.
Genome Assembly QC from BAM files
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firestar
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Answer: 1 vs 1 DEG analysis in scrna seq data
by
ATpoint
89k
The only option you have is to treat every single cell as a replicate. That has the obvious downside that any effect can be a donor-unique …
Answer: GUI commercial software for 10x single cell gene expression analysis
by
firestar
★ 1.7k
An open-source option: [kana](https://www.kanaverse.org/kana/).
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
Edward
• 0
Yes, we plan to make English the primary language of the Brave UI.
Comment: Reasonable number of SNPs in a bacterial genome.
by
michael.ante
★ 4.0k
If your bacterial species is a (human) pathogen, you might want to check outbreak analysis papers of that species. In general, you find t…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space?
by
lieven.sterck
16k
ok, missed that ... in any case that should not happen indeed. How did you determine that the files are not equal? I can indeed also see t…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
Ram
45k
Do you have a plan to make an English version of the UI?
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
Edward
• 0
This can visualize the parameters of the generated workflow, software, and scripts, and manage the docker process of the script, software, …
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
ATpoint
89k
Can you summarize in one sentence what the use case is? Is this a workflow manager?
Comment: Pseudogene - scarce info
by
ATpoint
89k
This reminds me strongly on my "masters" courses (doesn't deserve that name tbf). "Here is some poorly-described project with little to no …
Answer: scVI vs Harmony, which is better for cell type based clustering in brain tissue?
by
ATpoint
89k
There is no "better" is my experience. It always depends on the dataset. Try both and integrate your biological knowledge to decide which m…
Comment: DESeq2 on metagenome KO counts
by
Aleksandra
▴ 190
I just wrote that I misunderstood your initial question.
Comment: DESeq2 on metagenome KO counts
by
Aleksandra
▴ 190
What exactly did I not get?
Comment: Interpreting genomic features distribution for CUT&RUN peaks
by
rfran010
★ 1.7k
If I understand correctly, you see increased signal at TSS sites compared to control (taller peaks in browser). However, 92% of the 450 siS…
Comment: combine VCF from diploid reference/haplotypes for the same sample
by
cmdcolin
★ 4.3k
this question is a little similar to your previous question (https://www.biostars.org/p/9614638/). just as added info, here is a tool calle…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space?
by
aj123
▴ 130
As mentioned above, I just got the raw fastq files from the ftp site listed.
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