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 : this week
all time
today
this week
this month
this year
175 results • Page
4 of 4
Sort: Views
Rank
Views
Votes
Replies
0
votes
0
replies
107
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
3 days ago by
Adyasha
• 0
0
votes
1
reply
103
views
VG : No reference-sense paths available in the graph; falling back to generic paths.
vg
updated 16 hours ago by
anovak
▴ 120 • written 20 hours ago by
Hang
• 0
0
votes
0
replies
102
views
LEfSe
LEfSe
4 days ago by
benkosta
• 0
0
votes
0
replies
101
views
Job:
Postdoctoral Position in Bioinformatics - Mainz, Germany
NGS
Genomics
Post-doc
R-loops
updated 20 hours ago by
Ram
43k • written 1 day ago by
4r-rtg
• 0
0
votes
0
replies
99
views
Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
1 day ago by
VITALA
• 0
0
votes
1
reply
99
views
Provean help
variant
Provean
updated 17 hours ago by
Mensur Dlakic
★ 27k • written 20 hours ago by
Arun Sai Kumar
• 0
0
votes
0
replies
97
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass
Bioinformatics
spectrometry
Proteins
4 days ago by
atharvakarkare14
▴ 30
0
votes
0
replies
94
views
vg call vs vg surject
vg
variation
graphs
updated 4 days ago by
GenoMax
142k • written 4 days ago by
aliraza3119
• 0
0
votes
0
replies
92
views
Seeking Guidance on Identifying Mutations in DARs from ATAC Data in Cancer Genomes
Genomics
Bioinformatics
ATACseq
CancerResearch
3 days ago by
David
• 0
0
votes
0
replies
88
views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
DEXSeq
DEXSeqDataSet
SGSeq
3 days ago by
Sara
▴ 30
0
votes
0
replies
84
views
Tassel 5 GBS: GBSSeqToTagDBPlugin producing empty database
GBS
Tassel5
1 day ago by
meck
• 0
0
votes
0
replies
83
views
Combining Methylation Microarray data from different platforms
Microarray
DNA
EPIC
450K
Methylation
1 day ago by
James
▴ 10
0
votes
0
replies
82
views
Successfully identified and Masked rpeats using RM. What Next?
sequence
annotation
repeatmasker
illumina
assembly
1 day ago by
Vijith
▴ 30
3
votes
5
replies
77
views
Generating mpileup file using samtools
mpileup
samtools
updated 23 minutes ago by
Joe
21k • written 3 hours ago by
Ruqaiya
• 0
0
votes
0
replies
76
views
News:
Beyond beginner R: Advancing your coding skills - September 16-19
Advanced-Coding
Programming
R
updated 20 hours ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
75
views
Use of annotation of integrated Seurat object in single sample
Seurat
1 day ago by
Bine
▴ 60
0
votes
0
replies
73
views
edgeR contrasts for analysis of reciprocal hybrid crosses - averaging, pooling, and comparing groups
edgeR
1 day ago by
Rhiannon
• 0
0
votes
1
reply
57
views
Help with choosing a model species for Augustus for a de novo assembled genome.
augustus
annotation
assembly
genome
updated just now by
dthorbur
★ 1.9k • written 6 hours ago by
Vijith
▴ 30
0
votes
0
replies
56
views
Empty table plot using plotGseaTable()
FGSEA
15 hours ago by
Chris
▴ 260
0
votes
0
replies
57
views
SIngle cell analysis
Seurat
scRNA-seq
Harmony
DoubletFinder
Merge
7 hours ago by
Jeyong
• 0
2
votes
1
reply
45
views
Analysis of intronic reads included scRNA-seq data
cell
single
updated 1 hour ago by
ATpoint
82k • written 2 hours ago by
carolofharvest
▴ 10
0
votes
1
reply
43
views
DSEQ2 analysis
DSEQ2
logfoldchane
updated 2 hours ago by
ATpoint
82k • written 3 hours ago by
adi.gershon1
• 0
0
votes
0
replies
40
views
News:
Cellosaurus release 49 is available
cell
biocuration
line
database
news
knowledgebase
5 hours ago by
Amos Bairoch
▴ 120
0
votes
1
reply
23
views
Downloading older version of a tool
Alignment
tools
updated 14 minutes ago by
GenoMax
142k • written 56 minutes ago by
Ruqaiya
• 0
0
votes
0
replies
20
views
Generating illumina interops SAV like plots for multiqc reports on HPC
visualization
illumina
ngs
sequencing
1 hour ago by
rustykb
▴ 20
175 results • Page
4 of 4
Recent Votes
Convert vcf files with phased genotypes to standard haplotype format
Convert vcf files with phased genotypes to standard haplotype format
A: Convert vcf files with phased genotypes to standard haplotype format
How to extract haplotype data from phased bcf files
How to extract haplotype data from phased bcf files
Answer: RNA-seq data for deep learning classification
Answer: Analysis of intronic reads included scRNA-seq data
Recent Locations •
All
Switzerland,
just now
Lyon,
just now
UCLA,
2 minutes ago
USA,
3 minutes ago
United Kingdom,
3 minutes ago
Iran,
4 minutes ago
Perth, Australia,
4 minutes ago
Recent Awards •
All
Scholar
to
dsull
★ 5.9k
Scholar
to
eebloom
▴ 80
Popular Question
to
ManuelDB
▴ 80
Popular Question
to
rustykb
▴ 20
Popular Question
to
sativus
▴ 20
Student
to
Mariana
▴ 40
Popular Question
to
kuttibiotech2009
▴ 30
Recent Replies
Comment: Help with choosing a model species for Augustus for a de novo assembled genome.
by
dthorbur
★ 1.9k
Using any of the species present would likely result in a resonable annotation set. You could use *Arabidopsis* since it likely has the mos…
Comment: Downloading older version of a tool
by
GenoMax
142k
Have you tried conda install <pkg>=<version> so conda install smalt=0.5.8 <!-- junk -->
Comment: Generating mpileup file using samtools
by
Joe
21k
Older versions of software are usually available via distribution tools or the websites. It may require a lot of digging, but its almost ce…
Comment: RNA-seq data for deep learning classification
by
Yuju
• 0
Thank you very much for sharing your advice. Yes, it definitely makes sense that with the use of deep learning, models would learn normalis…
Comment: Generating mpileup file using samtools
by
Ruqaiya
• 0
I didn't use the same tool as in the paper...
Comment: read length in structural variant calling
by
eebloom
▴ 80
Yes good idea. I guess the quality of the SV calls and as a proxy for quality the length and distribution of variants called might be infor…
Comment: Generating mpileup file using samtools
by
Ruqaiya
• 0
I just realised I didn't align my reads with the tools they used and used bowtie2 instead. I can't download the older version that is menti…
Comment: Downsampling long-read BAM files
by
eebloom
▴ 80
This is not what I needed for this particular use case, as capping the coverage would lose the information on regions of copy number amplif…
Comment: Do I need to go back and filter my long-reads?
by
eebloom
▴ 80
Apologies, I deleted the question as I wasn't sure it would be helpful to others and it didn't seem to have a clear answer, not to snub the…
Comment: Do I need to go back and filter my long-reads?
by
eebloom
▴ 80
Thanks, I think it would be a good idea to track the results downstream to look for batch effects. I think I will filter the reads ultimate…
Comment: Generating mpileup file using samtools
by
ATpoint
82k
Seconding this. Apply current best practices (which is bcftools mpileup followed by something I forgot, see bcftools manual for variant cal…
Answer: Analysis of intronic reads included scRNA-seq data
by
ATpoint
82k
By default in CellRanger (lets assume you have 10x data processed with it) intronic reads are included. What you get in your matrix.mtx fil…
Comment: How does gene length effect the number of reads mapped
by
i.sudbery
19k
The number of reads for a gene is almost exactly linearly proportional to the length of the gene. In paired-end sequencing, we generally co…
Comment: What analysis suitable to identify similarly expressed genes between two samples
by
ATpoint
82k
Can you post your setup, so how many groups and their replication number? I can tell you by experience that you need even more replication …
Answer: DSEQ2 analysis
by
ATpoint
82k
The tool is called D**E**Seq2. Anyway, if your factor is `factor(conditions, levels = c("control", "mutant"))` then the first level is the …
Traffic: 2298 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