Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : all time
all time
today
this week
this month
this year
50 results • Page
1 of 1
Sort: Rank
Rank
Views
Votes
Replies
Showing top results for tag:
Nanopore
•
reset
0
votes
2
replies
199
views
Why use Hi-C and/or Bionano for scaffolding when Nanopore sequencing exists?
wgs
hic
sequencing
nanopore
genomics
updated 1 day ago by
shelkmike
★ 1.4k • written 2 days ago by
Mark
▴ 10
2
votes
6
replies
384
views
6 follow
Tools for Reference-Guided Assembly Using Nanopore Sequencing Reads
Assembly
Nanopore
Reference-guided
Genome-assembly
Tools
updated 6 days ago by
GenoMax
146k • written 7 days ago by
pratikshaadagale39722
• 0
0
votes
3
replies
273
views
What does fully overlapping supplementary alignments mean?
Alignment
nanopore
minimap2
updated 17 days ago by
Michael
55k • written 17 days ago by
njornet
▴ 20
0
votes
0
replies
178
views
Similar tools to visualize pileup of long-read alignments to a STR locus
str
long-reads
pileups
nanopore
28 days ago by
Antonio
• 0
0
votes
0
replies
159
views
News:
An Introduction to Nanopore direct RNA sequencing
cDNA
RNA-seq
Nanopore
updated 4 weeks ago by
Ram
44k • written 4 weeks ago by
carlopecoraro2
★ 2.6k
0
votes
0
replies
218
views
Is this phasing result normal?
haplotyping
sequencing
phasing
nanopore
5 weeks ago by
njornet
▴ 20
2
votes
4
replies
708
views
Estimating transcript integrity after cDNA sequencing for long read data (Nanopore)
cDNA
nanopore
RSeQC
updated 8 weeks ago by
GenoMax
146k • written 8 weeks ago by
Rox
★ 1.4k
0
votes
2
replies
294
views
Restrictive alignment with minimap2
nanopore
alignment
minimap2
9 weeks ago by
njornet
▴ 20
5
votes
4
replies
5.6k
views
Kraken2 with Nanopore reads
kraken2
nanopore
kraken
updated 9 weeks ago by
ChillarAnand
▴ 80 • written 3.3 years ago by
predeus
★ 2.0k
0
votes
2
replies
320
views
ONT Improved RCA Barcoded Plasmid Sequencing
ONT
plasmid-sequencing
nanopore
ngs
updated 9 weeks ago by
Ram
44k • written 10 weeks ago by
thewiggler
• 0
2
votes
2
replies
403
views
Somatic Variant Calling from Nanopore Data
variant
somatic
calling
cancer
nanopore
updated 10 weeks ago by
GenoMax
146k • written 10 weeks ago by
adarsh_munna
▴ 50
0
votes
3
replies
351
views
remove duplicates in Nanopore cDNA PCR data
Nanopore
picard
minimap2
duplicates
PCR
updated 9 weeks ago by
jeevii
• 0 • written 10 weeks ago by
静
• 0
0
votes
1
reply
213
views
Isoforms and Transcriptome assembly with direct RNA Nanopore reads
isoforms
assembly
transcriptome
sequencing
nanopore
updated 10 weeks ago by
GenoMax
146k • written 10 weeks ago by
mariana.villegas
• 0
0
votes
0
replies
219
views
whatshap ploidy error on female sample
ONT
ploidy
phasing
nanopore
updated 10 weeks ago by
Ram
44k • written 10 weeks ago by
eebloom
▴ 90
1
vote
3
replies
337
views
Canu Nanopore Genome assembly optimization
slurm
assembly
genome
canu
nanopore
updated 11 weeks ago by
Dave Carlson
★ 1.9k • written 11 weeks ago by
Umer
▴ 120
0
votes
0
replies
146
views
News:
Course: Structural Variant Detection and Comparison
Structural-Variants
SVs
Nanopore
11 weeks ago by
carlopecoraro2
★ 2.6k
1
vote
1
reply
373
views
Demultiplex fastq sequences based on sequence header
demultiplexing
barcodes
fastq
Nanopore
updated 11 weeks ago by
GenoMax
146k • written 11 weeks ago by
ja569116
• 0
0
votes
2
replies
308
views
Issues with Minimap2 and ONT (Nanopore)
minimap
nanopore
12 weeks ago by
pixie@bioinfo
★ 1.5k
0
votes
0
replies
166
views
StringTie Parameters for Yeast
gffcompare
nanopore
stringtie
rnaseq
12 weeks ago by
kyusikkim
▴ 20
0
votes
0
replies
150
views
I can not see the intron region aligned to ref in IGV from ONT direct RNA sequencing
Nanopore
12 weeks ago by
Zhen
• 0
0
votes
0
replies
168
views
News:
Course - RNA-Seq Analyses in Non-Model Organisms (online)
Bioconductor
Non-Model-Organisms
Nanopore
Pacbio
RNA-seq
updated 12 weeks ago by
Ram
44k • written 12 weeks ago by
carlopecoraro2
★ 2.6k
0
votes
4
replies
390
views
Nanopore cDNA sequencing - primary and complementary strand in one read
cDNA
nanopore
updated 3 months ago by
GenoMax
146k • written 3 months ago by
ovovo
• 0
2
votes
5
replies
473
views
Nanopore Data Quality Check
QC
Fungi
genome-assembly
Nanopore
3 months ago by
Umer
▴ 120
0
votes
4
replies
441
views
Use alignment as reference genome to separate DNA from a mixed sample
human
sequencing
nanopore
alignment
updated 3 months ago by
GenoMax
146k • written 3 months ago by
njornet
▴ 20
0
votes
0
replies
252
views
Clarification on ConClave Scoring and KMA Compatibility with Nanopore Reads
kma
nanopore
alignment
3 months ago by
Dim
• 0
2
votes
8
replies
623
views
Out of Sequencer Nanopore Raw Data
fastq
assembly
fast5
genome
nanopore
updated 3 months ago by
GenoMax
146k • written 3 months ago by
Umer
▴ 120
3
votes
3
replies
545
views
htseq, stringtie, featurecounts all not working on nanopore direct RNA
stringtie
minimap2
htseq
quantification
nanopore
updated 4 months ago by
colindaven
6.8k • written 4 months ago by
CL
• 0
0
votes
1
reply
436
views
What tools are there to quantify m6A methylation of Nanopore bam files?
m6a
methylation
Nanopore
RNA
updated 4 months ago by
Ram
44k • written 4 months ago by
smb51095
• 0
0
votes
1
reply
333
views
Comparing Gene Expression Before and After Treatment Using Nanopore Sequencing Data
sequencing
normalisation
nanopore
4 months ago by
Dim
• 0
0
votes
7
replies
737
views
Ribosomal RNA Depletion in silico
minimap
rna-seq
rRNA
nanopore
updated 4 months ago by
GenoMax
146k • written 4 months ago by
CL
• 0
0
votes
0
replies
194
views
News:
Course: Seafood Genomics
Seafood
FoodTraceability
Nanopore
Genomics
4 months ago by
carlopecoraro2
★ 2.6k
1
vote
2
replies
647
views
Trimming adapters and primer on ONT nanopore sequencing
trimming
16S
nanopore
4 months ago by
l.gallucci
▴ 20
2
votes
8
replies
578
views
Are there instutions that allow to use their hpc without charge?
16s
hpc
Nanopore
updated 4 months ago by
a.alnawfal.1992
▴ 350 • written 5 months ago by
kerianaleerivera
• 0
5
votes
7
replies
1.0k
views
Best practices in Fungal Genome Assembly
illumina
assembly
nanopore
genome
updated 5 months ago by
samuel.a.odonnell
▴ 580 • written 5 months ago by
Umer
▴ 120
1
vote
6
replies
803
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
5 months ago by
Umer
▴ 120
0
votes
1
reply
553
views
Difference in number of reads when using duplex and simplex base calling with Dorado
base
calling
nanopore
simplex
dorado
duplex
updated 5 months ago by
GenoMax
146k • written 5 months ago by
Lélé
▴ 10
0
votes
9
replies
1.1k
views
Duplicated reads (IDs) from nanopore sequencing
bam
nanopore
sequencing
5 months ago by
njornet
▴ 20
0
votes
0
replies
258
views
News:
Online course: An Introduction to Nanopore Direct RNA Sequencing
Nanopore
RNAseq
5 months ago by
carlopecoraro2
★ 2.6k
1
vote
7
replies
938
views
Downsampling long-read BAM files
nanopore
BAM
QC
ONT
downsampling
6 months ago by
eebloom
▴ 90
1
vote
1
reply
490
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 6 months ago by
Michael
55k • written 6 months ago by
Lissa Cruz Saavedra
• 0
0
votes
3
replies
394
views
Software to separate reads from different individuals
software
development
nanopore
updated 6 months ago by
GenoMax
146k • written 6 months ago by
njornet
▴ 20
0
votes
9
replies
3.1k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 6 months ago by
Ram
44k • written 14 months ago by
Gio
• 0
0
votes
0
replies
242
views
News:
Online course: DNA methylation
Pacbio
Nanopore
DnaMethylation
Evolution
6 months ago by
carlopecoraro2
★ 2.6k
1
vote
6
replies
690
views
Do I need to go back and filter my long-reads?
alignment
nanopore
filtering
QC
ONT
updated 6 months ago by
GenoMax
146k • written 6 months ago by
eebloom
▴ 90
1
vote
0
replies
257
views
phasing tumor long-reads
nanopore
ONT
haplotag
phasing
tumor
5 months ago by
eebloom
▴ 90
0
votes
1
reply
668
views
Clair3 very low F1 INDEL score
ont
clair3
nanopore
wgs
updated 6 months ago by
yussab
▴ 100 • written 2.3 years ago by
Satrio
• 0
0
votes
2
replies
369
views
fmols for nanopore library loading
nanopore
sequencing
libraryprep
fmol
LSK114
updated 6 months ago by
GenoMax
146k • written 6 months ago by
njornet
▴ 20
0
votes
4
replies
533
views
Adaptive sampling for whole chromosomes
T2T
Nanopore
AdaptiveSampling
aneuploidy
centromeres
6 months ago by
njornet
▴ 20
2
votes
3
replies
597
views
Read Classification from ONT
classification
reads
nanopore
updated 6 months ago by
dthorbur
★ 2.5k • written 6 months ago by
maevalefeuvre
• 0
5
votes
3
replies
960
views
Problems with Nextflow to run NanoRtax Pipeline
NanoRtax
Nextflow
Nanopore
updated 7 months ago by
colindaven
6.8k • written 7 months ago by
kerianaleerivera
• 0
50 results • Page
1 of 1
Recent Votes
Comment: Comparing whole transcriptome under one condition to the transcriptomes under ot
Comment: Can VST be called Log2 expression in a paper?
Comment: Explanation of DESeq factor leveling
Explanation of DESeq factor leveling
Comment: Run mutltiple Fastq files on Hisat2
filterx : fast and efficient filter tool written in Rust for csv,fasta,fastq,gff,vcf,sam files.
Answer: how to install conda bcftools +fill-tags plugin ?
Recent Locations •
All
Australia,
1 minute ago
Germany,
11 minutes ago
Brazil,
15 minutes ago
Macao,
16 minutes ago
UK,
18 minutes ago
China,
22 minutes ago
Sweden,
26 minutes ago
Recent Awards •
All
Popular Question
to
wangziwei0010
▴ 30
Popular Question
to
xiaoleiusc
▴ 140
Popular Question
to
odi
▴ 10
Popular Question
to
Alewa
▴ 170
Popular Question
to
Ezequiel
▴ 10
Popular Question
to
pablo
▴ 310
Popular Question
to
Jichen Wen
▴ 30
Recent Replies
Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How?
by
ATpoint
85k
> But How could I know if the difference comes from sample instead of sequencing runs or cohort-driven batch effect? You cannot. It's pe…
Comment: Comparing GSEA mutant data to wild type
by
conmul
• 0
Sorry that it was unclear in the post. The data is all CRISPR gene effect scores from DepMap. The 'significant genes' as mentioned in the p…
Comment: How to determine whether it is 10x data
by
king
• 0
Thank you for your answer, it's very inspiring.
Comment: Inquiry about depth of coverage and copy number variation
by
Chen
• 0
Thanks Pierre, I was actually thinking about the duplicate PCR reads and didn't explain it properly. I have found a post mentioning that qu…
Comment: Can a read be aligned more than once?
by
GenoMax
146k
Yes a read can be aligned more than once (I don't specifically know about gam/gaf). It would be called a "multi-mapping" read. You could im…
Comment: Statistical test to be used for dataset
by
allingt
• 0
The choice of test depends on the types of variables involved and the hypothesis you have. But most importantly on the question you want am…
Comment: dittoHeatmap; adding column labels on the heatmap
by
jared.andrews07
★ 18k
I'd consider making a [block annotation](https://jokergoo.github.io/ComplexHeatmap-reference/book/heatmap-annotations.html#block-annotation…
Comment: Comparing GSEA mutant data to wild type
by
allingt
• 0
What do you mean by "significant gene"? How did you perform GSEA and on how did you rank your genes for it? From guesswork I might initiall…
Comment: Genes of Interest in a Multi-Tissue Analysis
by
allingt
• 0
The DESeq2 manual tells us that the object class of vst() output is a subclass of RangedSummarizedExperiment. I suspect the methods applica…
Comment: WGCNA: Why are my brown, yellow, and other modules not visible in the gene dendr
by
allingt
• 0
Did you perform blockwise module detection by any chance? Are your results object's contents sorted in blocks?
Comment: Why does WGCNA use weighted correlation instead of Pearson correlation?
by
allingt
• 0
The WGCNA implementation by Langfelder and Horvath provides various correlation methods to create the initial correlation matrix. I don't t…
Comment: dittoHeatmap; adding column labels on the heatmap
by
Varun Gupta
★ 1.3k
any idea, how can I display the labels Pre and POst on the top of the heatmap? I am looking at complexheatmap package as to how they displa…
Comment: How can I determine the p-value of genes within each identified module in WGCNA?
by
allingt
• 0
What p-value do you mean? When and how did you calculate it?
Answer: What is a genomic range that would almost always get decent WGS coverage but is
by
i.sudbery
20k
What about some of the well known enhancer regions, the globin locus LCR? Likely to be highly sequenceable, and yet not on exome panels.
Answer: Using NumReads column of quants.genes.sf file to build DESeq2 input
by
i.sudbery
20k
One of the improvements that the using the `salmon` -> `tximport` -> `DESeq2` pipeline, over just a `counts`->`DESeq2` pipeline is the abil…
Traffic: 1609 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6