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120,916 results • Page
1 of 2419
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0
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63
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Question About Handling Technical Replicates in ATAC-seq
technical-replicate
atacseq
updated 2 hours ago by
rfran010
★ 1.4k • written 8 hours ago by
LuciaNhu
▴ 10
12
votes
16
replies
18k
views
8 follow
How to convert vcf to 23andme format
genome
sequencing
SNP
updated 6 hours ago by
ngelbal
• 0 • written 7.5 years ago by
alec_djinn
▴ 390
0
votes
2
replies
77
views
Poor alignment rates using Bowtie
aligment
bowtie2
bowtie
miRNAs
1 hour ago by
omicon
▴ 40
0
votes
1
reply
68
views
Polishing raw nanopore reads with Pacbio
polishing
assembly
updated 7 hours ago by
GenoMax
150k • written 7 hours ago by
samuel.a.odonnell
▴ 590
836
votes
169
replies
172k
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
4
replies
372
views
bbduk.sh trimming to BAM output file
bbduk.sh
updated 9 hours ago by
Brian Bushnell
20k • written 6 days ago by
bge
• 0
0
votes
3
replies
165
views
Identifying domain of long-read assembled contig
longread
taxonomy
identification
contig
updated 10 hours ago by
Mensur Dlakic
★ 29k • written 23 hours ago by
Gio
• 0
0
votes
0
replies
59
views
Methods for directional pathway analysis of DEGs?
Pathway
ORA
GSEA
analysis
Limma
updated 12 hours ago by
GenoMax
150k • written 12 hours ago by
Steven
• 0
0
votes
3
replies
121
views
Discrepancy between positions on IGV and NCBI's PrimerBLAST
igv
primer
blast
updated 12 hours ago by
GenoMax
150k • written 14 hours ago by
Rozita
▴ 40
0
votes
0
replies
58
views
Why does Radian run so much slower than vanilla R?
R
Python
Radian
VS-Code
14 hours ago by
RR
• 0
4
votes
9
replies
264
views
6 follow
About the Tool FASTP
Quality-control
reads
fastp
updated 6 hours ago by
Ram
45k • written 21 hours ago by
AIMAR
• 0
0
votes
0
replies
49
views
Significant SNPs with the same effect in FarmCPU
effect-size
gwas
FarmCPU
likage-disequilibrium
15 hours ago by
AndrMod
• 0
6
votes
11
replies
690
views
Larger genome size than expected-please help
genome
nanopore
size
minimap2
17 hours ago by
alexandrakortsi
• 0
0
votes
0
replies
68
views
Job:
Postdoc ML/AI in Genomics & Bioinformatics at Duke University
Postodoc
Genomics
AI
17 hours ago by
alwayshope
▴ 40
0
votes
1
reply
111
views
analyze gene expression of 3 genes in RNA-Seq data
R
RNA-Seq
updated 13 hours ago by
ATpoint
87k • written 17 hours ago by
pinheirofabiano
▴ 100
1
vote
1
reply
342
views
methRead takes too long
MethylKit
updated 18 hours ago by
Alexander Blume
▴ 10 • written 7 months ago by
CTLong
▴ 140
0
votes
0
replies
65
views
rrvgo::getGoSize error
ReViGO
GO-terms
rrvgo
updated 6 hours ago by
Ram
45k • written 19 hours ago by
Ana
• 0
0
votes
0
replies
65
views
Genotype Imputation for VCF File via API Using R ?
Genotype-Imputation
VCF
API
19 hours ago by
Ahmed Jaber
• 0
0
votes
0
replies
81
views
How label Group list after integratin scRNA-seq and scATAC-seq data
ArchR
1 day ago by
Bioinformatics_16
• 0
0
votes
1
reply
144
views
Forum:
Questions on what to focus on in the next 3-4 years of my research
Career
offtopic
path
2 hours ago by
Abiodun
• 0
0
votes
7
replies
371
views
Error in importing data from 10x genomics into RStudio
H5
file
scRNA
RStudio
6 hours ago by
himanshu0102
• 0
1
vote
2
replies
175
views
WGS for CNV and Aneuploidy analysis
CNV
Aneuploidy
WGS
updated 1 day ago by
colindaven
7.4k • written 1 day ago by
bioinfo1990
▴ 10
0
votes
0
replies
94
views
News:
Course: Phylogenetic Comparative Methods in R – May 12–16 (Online)
R
Phylogenetic-Comparative-Methods
Ultrametric-Phylogenies
updated 6 hours ago by
Ram
45k • written 1 day ago by
Physalia-courses
★ 2.6k
2
votes
2
replies
224
views
Merge and unique multiple complete sam files from identical fastq files
samtools
aligment
sambamba
WGBS
WGS
18 hours ago by
JustinZhang
▴ 120
0
votes
1
reply
497
views
Issues with T2T in pigeon prepare from isoseq
long-read
isoseq
rna-seq
updated 6 hours ago by
Ram
45k • written 6 months ago by
SethJ
• 0
1
vote
1
reply
288
views
How to obtain TPM data after batch effect correction from count data obtained using RSEM
STAR
RNA-seq
Batch
RSEM
effect
updated 3 days ago by
Gordon Smyth
★ 7.9k • written 3 days ago by
Apprentice
▴ 170
1
vote
1
reply
334
views
Missing short indels from vcf
bcftools
shortindels
mpileup
updated 3 days ago by
LauferVA
4.7k • written 6 days ago by
kbranger
• 0
4
votes
6
replies
508
views
Facing issue with output of nextflow pipeline
output
nextflow
fastqc
issue
updated 3 days ago by
mmhryc
• 0 • written 5 days ago by
harsh
▴ 20
1
vote
2
replies
265
views
Choosing the best clustering method for a certain methylation data
DMR
k-means
hierarchical
clustering
methylation
updated 3 days ago by
5heikki
11k • written 3 days ago by
Sophia
• 0
4
votes
5
replies
422
views
Extract length of sample sequence from vcf
microsatellites
bcftools
vcf
indels
variants
updated 3 days ago by
Billy Rowell
▴ 510 • written 3 days ago by
jahnreinhard.ringger
• 0
1
vote
12
replies
559
views
MultiQC_report
adapter
Quality-control
fastqc
multiqc
updated 6 hours ago by
Ram
45k • written 3 days ago by
AIMAR
• 0
4
votes
3
replies
310
views
Forum:
How to get into research for an absolute beginners
research
updated 19 hours ago by
Yugan Gogul Muthukumar
▴ 10 • written 3 days ago by
jpeduprep
• 0
0
votes
0
replies
168
views
News:
Online course — Comparative Genomics — 7–11 April
SNVs
ComparativeGenomics
SVs
GenomeAnnotation
3 days ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
251
views
how to do a corellation analysis of multiple CRISPR data sets
crispr-screen
batch-effect
correlation
updated 6 hours ago by
Ram
45k • written 3 days ago by
Assa Yeroslaviz
★ 1.9k
8
votes
4
replies
492
views
Alternatives to UCSC genome browser for obtaining gene coordinates
browser
ucsc
updated 3 days ago by
LauferVA
4.7k • written 6 days ago by
shpak.max
▴ 60
1
vote
12
replies
639
views
Tool:
Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
ai
biology
grants
nih
litreview
updated 11 hours ago by
jared.andrews07
★ 18k • written 4 days ago by
Will
• 0
0
votes
0
replies
207
views
Job:
Postdoctoral Position in Computational Protein Design and Molecular Modelling
protein-design
molecular-modeling
postdoc
updated 6 hours ago by
Ram
45k • written 4 days ago by
Sophie
• 0
1
vote
3
replies
365
views
Modify read groups in BAM file
samtools
BAM
picard
DRAGEN
updated 3 days ago by
1769mkc
★ 1.2k • written 4 days ago by
Alex
• 0
0
votes
1
reply
251
views
How to put distinct colors to connection bridges in the Sankey plot ?
R
Python
Sankey
updated 3 days ago by
zx8754
12k • written 4 days ago by
ohtang7
▴ 40
1
vote
1
reply
247
views
PCA comparison of cell line vs tumors
RNAseq
Sequencing
PCA
Normalization
updated 22 hours ago by
ATpoint
87k • written 4 days ago by
karlensberg
• 0
2
votes
9
replies
568
views
Find the reads which correspond to DP of vcf
bam
variant
vcf
sam2tsv
updated 4 days ago by
Pierre Lindenbaum
165k • written 5 days ago by
totoroGirl
• 0
1
vote
1
reply
267
views
cibersortx error - $ operator is invalid for atomic vectors
cibersortx
4 days ago by
Franck
• 0
0
votes
0
replies
189
views
Need help defining a threshold
DAVID
Genes
GO
4 days ago by
Ana
• 0
5
votes
4
replies
367
views
PCA plots in ATAC-seq replicates: Is it okay to use vst transformed data for visualization?
ATAC-seq
diffbind
updated 4 days ago by
ATpoint
87k • written 4 days ago by
maplewj
▴ 20
0
votes
1
reply
418
views
Question about `vg construct`
vg
updated 4 days ago by
Jouni Sirén
▴ 630 • written 9 days ago by
zhengluo
• 0
0
votes
0
replies
206
views
How can I use mcmcglmm to calculate whether two traits are correlated?
glmm
statistics
evolution
5 days ago by
雨
▴ 20
0
votes
3
replies
997
views
DiffBind normalization error: invalid argument type (list) - cannot make it work, everything seems correct
normalization
deseq2
chipseq
diffbind
16 hours ago by
buffealo
▴ 130
1
vote
8
replies
1.7k
views
6 follow
FastQC on nanopore data: high proportion of polyA and polyG. Why ?
fastQC
polyG
ONT
nanopore
polyA
updated 4 days ago by
lieven.sterck
15k • written 13 months ago by
Matt
• 0
80
votes
32
replies
31k
views
18 follow
Tutorial:
How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
RNA-seq
updated 3 days ago by
Paulo
▴ 10 • written 11.2 years ago by
Istvan Albert
102k
1
vote
4
replies
440
views
News:
Wolfram tech for bio data analysis
plots
statistics
databases
ai
5 days ago by
dk7258859
• 0
120,916 results • Page
1 of 2419
Recent Votes
Clarification on sequence duplication levels and Qualimap estimated duplication rate
Comment: About the Tool FASTP
Comment: PCA comparison of cell line vs tumors
Comment: Larger genome size than expected-please help
Answer: Find the reads which correspond to DP of vcf
Answer: Find the reads which correspond to DP of vcf
High BCV in differential expression, thoughts?
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Commentator
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rfran010
★ 1.4k
Popular Question
to
Joshi
• 0
Popular Question
to
SalmaElShafie
• 0
Scholar
to
Pierre Lindenbaum
165k
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SushiRoll
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Recent Replies
Comment: Poor alignment rates using Bowtie
by
omicon
▴ 40
Geno, thank you very much for your response. The associated paper doesn’t provide much information… they mention the kit (Ion Total RNA-Se…
Comment: How to identify 16s sequences from binning data(contigs)?
by
Brian Bushnell
20k
Hi Laura, did you solve the problem, or was there something you need in addition to the version on my google drive? I do have a couple oth…
Answer: Question About Handling Technical Replicates in ATAC-seq
by
rfran010
★ 1.4k
> Should I merge these replicates? If yes, should the merging be done at > the FASTQ level, BAM level, or peak level (e.g., overlapping pe…
Comment: Poor alignment rates using Bowtie
by
GenoMax
150k
The data above is likely referenced in this past thread from OP (if it is not please let us know): https://www.biostars.org/p/9609664/ Si…
Comment: How to convert vcf to 23andme format
by
ngelbal
• 0
Can someone please provide me with a tool/sourcecode to convert a VCF into GEDMatch uploadable format?
Comment: Error in importing data from 10x genomics into RStudio
by
himanshu0102
• 0
Yes, that is correct.
Comment: Polishing raw nanopore reads with Pacbio
by
GenoMax
150k
Just a thought. You could make fake illumina reads from HiFi reads.
Comment: Error in importing data from 10x genomics into RStudio
by
1769mkc
★ 1.2k
to help you and at the same time other can help when you can cite what exactly you had ran the code, the Seurat version R session info etc,…
Answer: bbduk.sh trimming to BAM output file
by
Brian Bushnell
20k
Hi Brent, at one time, and to some extent, BBDuk did trimming of sam/bam files. However, it's a very fiddly process because the cigar stri…
Answer: Identifying domain of long-read assembled contig
by
Mensur Dlakic
★ 29k
In my experience, [**tiara**](https://github.com/ibe-uw/tiara) works really well in classifying contigs between the 3 major kingdoms, plus …
Comment: I Built a Website That Summarizes Your Research with 5 Emojis
by
Ram
45k
This post does not fit the theme of this forum.
Comment: Error in importing data from 10x genomics into RStudio
by
jared.andrews07
★ 18k
Please learn [how to ask a good question](https://www.biostars.org/p/75548/). We are unable to help you given the information provided.
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
jared.andrews07
★ 18k
Super hard pass. This just enables the further flooding of study sections with low-quality, poorly thought-out drivel with a veneer of poli…
Comment: Discrepancy between positions on IGV and NCBI's PrimerBLAST
by
GenoMax
150k
Can you check with the ` in silico` PCR tool at UCSC to see what that says : https://genome.ucsc.edu/cgi-bin/hgPcr PrimerBLAST is likely …
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
Will
• 0
Jared, I know you're highly skeptical. So, let's see if I can prove you wrong. Book a demo, and I'll walk you through the tool personally.
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