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120,920 results • Page
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0
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28
views
GTF repeatmasker annotation file
repeatmasker
GTF
1 hour ago by
frarodmar17
• 0
0
votes
2
replies
1.3k
views
Searching for online tools to prepare mitochondrial codon usage
genome
updated 2 hours ago by
aboozar.soorni
▴ 30 • written 4.6 years ago by
puipui
• 0
1
vote
1
reply
54
views
Getting sequences fragments using pysam
sequencing
pysam
reads
wgs
updated 2 hours ago by
i.sudbery
21k • written 3 hours ago by
Juls
• 0
6
votes
9
replies
2.9k
views
Does EnhancedVolcano() supports crosstalk()?
EnhancedVolcano
crosstalk
R
ggplot
updated 2 hours ago by
GenoMax
150k • written 5.2 years ago by
IrK
▴ 100
0
votes
1
reply
49
views
How to select GEO datasets for differential expression analysis using GEO2R
GEO
DEGs
GEO2R
updated 2 hours ago by
ATpoint
87k • written 3 hours ago by
dreamer247
• 0
0
votes
0
replies
61
views
Blog:
Unlocking the Cellular Universe: The Importance of Single-Cell Sequencing in Animal and Plant Research
Single-cell
5 hours ago by
Novogene
▴ 500
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
3
replies
629
views
PopGenome lost individual information
PopGenome
updated 6 hours ago by
kristensen1234
▴ 10 • written 12 months ago by
Yixuan
• 0
1
vote
1
reply
105
views
Question About Handling Technical Replicates in ATAC-seq
technical-replicate
atacseq
updated 10 hours ago by
rfran010
★ 1.4k • written 16 hours ago by
LuciaNhu
▴ 10
12
votes
16
replies
18k
views
8 follow
How to convert vcf to 23andme format
genome
sequencing
SNP
updated 14 hours ago by
ngelbal
• 0 • written 7.5 years ago by
alec_djinn
▴ 390
0
votes
2
replies
126
views
Poor alignment rates using Bowtie
aligment
bowtie2
bowtie
miRNAs
9 hours ago by
omicon
▴ 40
1
vote
2
replies
113
views
Polishing raw nanopore reads with Pacbio
polishing
assembly
updated 7 hours ago by
colindaven
7.4k • written 15 hours ago by
samuel.a.odonnell
▴ 590
0
votes
4
replies
391
views
bbduk.sh trimming to BAM output file
bbduk.sh
updated 17 hours ago by
Brian Bushnell
20k • written 6 days ago by
bge
• 0
0
votes
3
replies
189
views
Identifying domain of long-read assembled contig
longread
taxonomy
identification
contig
updated 18 hours ago by
Mensur Dlakic
★ 29k • written 1 day ago by
Gio
• 0
0
votes
1
reply
104
views
Methods for directional pathway analysis of DEGs?
Pathway
ORA
GSEA
analysis
Limma
updated 6 hours ago by
Basti
★ 2.0k • written 20 hours ago by
Steven
• 0
0
votes
4
replies
142
views
Discrepancy between positions on IGV and NCBI's PrimerBLAST
igv
primer
blast
11 minutes ago by
Rozita
▴ 40
0
votes
0
replies
75
views
Why does Radian run so much slower than vanilla R?
R
Python
Radian
VS-Code
23 hours ago by
RR
• 0
4
votes
9
replies
290
views
6 follow
About the Tool FASTP
Quality-control
reads
fastp
updated 14 hours ago by
Ram
45k • written 1 day ago by
AIMAR
• 0
0
votes
0
replies
63
views
Significant SNPs with the same effect in FarmCPU
effect-size
gwas
FarmCPU
likage-disequilibrium
23 hours ago by
AndrMod
• 0
6
votes
11
replies
716
views
Larger genome size than expected-please help
genome
nanopore
size
minimap2
1 day ago by
alexandrakortsi
• 0
0
votes
0
replies
82
views
Job:
Postdoc ML/AI in Genomics & Bioinformatics at Duke University
Postodoc
Genomics
AI
1 day ago by
alwayshope
▴ 40
0
votes
1
reply
124
views
analyze gene expression of 3 genes in RNA-Seq data
R
RNA-Seq
updated 21 hours ago by
ATpoint
87k • written 1 day ago by
pinheirofabiano
▴ 100
1
vote
1
reply
356
views
methRead takes too long
MethylKit
updated 1 day ago by
Alexander Blume
▴ 10 • written 7 months ago by
CTLong
▴ 140
0
votes
0
replies
77
views
rrvgo::getGoSize error
ReViGO
GO-terms
rrvgo
updated 14 hours ago by
Ram
45k • written 1 day ago by
Ana
• 0
0
votes
0
replies
76
views
Genotype Imputation for VCF File via API Using R ?
Genotype-Imputation
VCF
API
1 day ago by
Ahmed Jaber
• 0
0
votes
0
replies
94
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
158
views
Forum:
Questions on what to focus on in the next 3-4 years of my research
Career
offtopic
path
10 hours ago by
Abiodun
• 0
0
votes
7
replies
404
views
Error in importing data from 10x genomics into RStudio
H5
file
scRNA
RStudio
14 hours ago by
himanshu0102
• 0
1
vote
2
replies
196
views
WGS for CNV and Aneuploidy analysis
CNV
Aneuploidy
WGS
5 hours ago by
bioinfo1990
▴ 10
0
votes
0
replies
107
views
News:
Course: Phylogenetic Comparative Methods in R – May 12–16 (Online)
R
Phylogenetic-Comparative-Methods
Ultrametric-Phylogenies
updated 14 hours ago by
Ram
45k • written 2 days ago by
Physalia-courses
★ 2.6k
2
votes
2
replies
238
views
Merge and unique multiple complete sam files from identical fastq files
samtools
aligment
sambamba
WGBS
WGS
1 day ago by
JustinZhang
▴ 120
0
votes
1
reply
508
views
Issues with T2T in pigeon prepare from isoseq
long-read
isoseq
rna-seq
updated 14 hours ago by
Ram
45k • written 6 months ago by
SethJ
• 0
1
vote
1
reply
302
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
349
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
528
views
Facing issue with output of nextflow pipeline
output
nextflow
fastqc
issue
updated 3 days ago by
mmhryc
• 0 • written 6 days ago by
harsh
▴ 20
1
vote
2
replies
280
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 4 days ago by
Sophia
• 0
4
votes
6
replies
474
views
Extract length of sample sequence from vcf
microsatellites
bcftools
vcf
indels
variants
5 hours ago by
jahnreinhard.ringger
• 0
1
vote
12
replies
592
views
MultiQC_report
adapter
Quality-control
fastqc
multiqc
updated 14 hours ago by
Ram
45k • written 4 days ago by
AIMAR
• 0
4
votes
3
replies
326
views
Forum:
How to get into research for an absolute beginners
research
updated 1 day ago by
Yugan Gogul Muthukumar
▴ 10 • written 4 days ago by
jpeduprep
• 0
0
votes
0
replies
181
views
News:
Online course — Comparative Genomics — 7–11 April
SNVs
ComparativeGenomics
SVs
GenomeAnnotation
4 days ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
268
views
how to do a corellation analysis of multiple CRISPR data sets
crispr-screen
batch-effect
correlation
updated 14 hours ago by
Ram
45k • written 4 days ago by
Assa Yeroslaviz
★ 1.9k
8
votes
4
replies
504
views
Alternatives to UCSC genome browser for obtaining gene coordinates
browser
ucsc
updated 4 days ago by
LauferVA
4.7k • written 6 days ago by
shpak.max
▴ 60
1
vote
12
replies
672
views
Tool:
Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
ai
biology
grants
nih
litreview
updated 19 hours ago by
jared.andrews07
★ 18k • written 4 days ago by
Will
• 0
0
votes
0
replies
219
views
Job:
Postdoctoral Position in Computational Protein Design and Molecular Modelling
protein-design
molecular-modeling
postdoc
updated 14 hours ago by
Ram
45k • written 4 days ago by
Sophie
• 0
1
vote
3
replies
380
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
262
views
How to put distinct colors to connection bridges in the Sankey plot ?
R
Python
Sankey
updated 4 days ago by
zx8754
12k • written 4 days ago by
ohtang7
▴ 40
1
vote
1
reply
262
views
PCA comparison of cell line vs tumors
RNAseq
Sequencing
PCA
Normalization
updated 1 day ago by
ATpoint
87k • written 4 days ago by
karlensberg
• 0
2
votes
9
replies
584
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
277
views
cibersortx error - $ operator is invalid for atomic vectors
cibersortx
4 days ago by
Franck
• 0
0
votes
0
replies
200
views
Need help defining a threshold
DAVID
Genes
GO
4 days ago by
Ana
• 0
120,920 results • Page
1 of 2419
Recent Votes
Answer: Getting sequences fragments using pysam
C: Does EnhancedVolcano() supports crosstalk()?
C: Does EnhancedVolcano() supports crosstalk()?
A: What Does The Sequence Nnnn... Mean On A Sam File?
A: What Does The Sequence Nnnn... Mean On A Sam File?
Answer: Question About Handling Technical Replicates in ATAC-seq
Comment: Polishing raw nanopore reads with Pacbio
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Comment: Discrepancy between positions on IGV and NCBI's PrimerBLAST
by
Rozita
▴ 40
It showed me the same positions as that of PrimerBLAST. Any idea how do I now visualise the publicly available datasets that I have and co…
Answer: Searching for online tools to prepare mitochondrial codon usage
by
aboozar.soorni
▴ 30
we developed this shiny app: https://pcg-lab.shinyapps.io/RSCU-Plot/
Comment: How to select GEO datasets for differential expression analysis using GEO2R
by
ATpoint
87k
> Is there any convention as to how many and how to choose the datasets? No, this is entirely up to you and the details of your project. …
Answer: Getting sequences fragments using pysam
by
i.sudbery
21k
Yes, including a check for `read.is_read1` should be sufficient.
Answer: Does EnhancedVolcano() supports crosstalk()?
by
Mauws
• 0
Original Github issues: https://github.com/kevinblighe/EnhancedVolcano/issues/77 https://github.com/kevinblighe/EnhancedVolcano/issues/114…
Comment: Extract length of sample sequence from vcf
by
jahnreinhard.ringger
• 0
unfortunately both of these did not work for my case, as both return the difference between the REF and ALT alleles of all samples, and not…
Comment: PopGenome lost individual information
by
kristensen1234
▴ 10
Hi, I am facing the same problem and was wondering if you found a solution?
Comment: Methods for directional pathway analysis of DEGs?
by
Basti
★ 2.0k
GSEA is directional and will identify gene sets that are regulated in one direction. If you want to use ORA, you could separate up-regulate…
Comment: Polishing raw nanopore reads with Pacbio
by
colindaven
7.4k
I don't know of any tools. The more typical polishing approach would be to assemble the ONT reads first, then polish contigs using more acc…
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.
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