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 : today
all time
today
this week
this month
this year
46 results • Page
1 of 1
Sort: Rank
Rank
Views
Votes
Replies
0
votes
2
replies
32
views
z-score of gene set
z-score
scRNA
set
gene
updated 8 minutes ago by
Matthias Zepper
4.6k • written 1 hour ago by
Hien
• 0
1
vote
1
reply
30
views
converting transcript IDs (Ensembl) to gene symbols in R
RNAseq
updated 32 minutes ago by
bk11
★ 2.5k • written 1 hour ago by
ashkan
▴ 160
0
votes
0
replies
10
views
Linking AMR Genes to Taxonomy in Soil Metagenomics
metagenomics
bacteria
wgs
AMR
resistome
updated 25 minutes ago by
GenoMax
142k • written 38 minutes ago by
LuciaNhu
• 0
0
votes
1
reply
15
views
How can we convert a vcf to fasta, so that I can blast some genes against that whole genome sequences?
blast
vcf
identification
gene
fasta
updated 39 minutes ago by
Pierre Lindenbaum
161k • written 55 minutes ago by
Harshita
• 0
2
votes
0
replies
16
views
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
liftOver
ATAC-seq
Bioinformatics
csaw
59 minutes ago by
Rafael Soler
★ 1.2k
0
votes
0
replies
16
views
Job:
PhD position for metagenomics analysis at the University of Udine
metagenomics
bioinformatics
job
1 hour ago by
Fabio Marroni
★ 3.0k
0
votes
0
replies
17
views
How does Kraken2 deal with poor read qualities?
kraken
qiime2
kraken2
qiime
updated 24 minutes ago by
GenoMax
142k • written 1 hour ago by
Christopher
• 0
3
votes
5
replies
374
views
Practical Haplotype Graph v2 not finding correct paths
Pangenome
PHG
graph
1 hour ago by
beantkapoor16
▴ 10
0
votes
1
reply
35
views
DRAGEN gVCF files and joint calling GATK-GenomicsDB
DRAGEN
GenomicsDB
updated 1 hour ago by
DBScan
▴ 300 • written 2 hours ago by
brunomiwa
• 0
0
votes
0
replies
28
views
Last step of metagenome analysis before visualization
metagenome
python
analyis
2 hours ago by
Ayda Ecem
• 0
0
votes
3
replies
74
views
Generating a Bed file from a Fasta file
bedfile
Sequences
Random
NullSeq
updated 2 hours ago by
Pierre Lindenbaum
161k • written 3 hours ago by
pirku
• 0
0
votes
3
replies
1.7k
views
Running STRUCTURE from command line
command
STRUCTURE
unix
updated 3 hours ago by
Arthur
• 0 • written 3.0 years ago by
giulia.trauzzi
▴ 10
1
vote
3
replies
514
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 4 hours ago by
Klaus S
▴ 160 • written 5 weeks ago by
Zeng Hao
▴ 40
0
votes
0
replies
41
views
Calculated LAI is too large
annotation
LAI
assembly
TE
genome
6 hours ago by
Yao
▴ 30
1
vote
1
reply
687
views
Herald:
The Biostar Herald for Monday, November 01, 2021
herald
written 2.6 years ago by
Biostar
2.8k
17
votes
10
replies
7.3k
views
7 follow
T2T-CHM13 "complete" human genome gff/gtf annotation file
genomics
written 3.0 years ago by
noodle
▴ 580
0
votes
0
replies
49
views
How to recover the entire sequence from all_contig_annotations.csv?
VDJ
single-cell
TCR-seq
cellranger
10x
8 hours ago by
dawnyipingzou
• 0
0
votes
2
replies
96
views
Where to find old version of GATK best practice
gatk
updated 2 hours ago by
GenoMax
142k • written 8 hours ago by
Zhenyu Zhang
★ 1.2k
0
votes
1
reply
79
views
Nextflow docker: Error response from daemon
sarek
gatk4
docker
nextflow
updated 8 hours ago by
Pierre Lindenbaum
161k • written 8 hours ago by
Peter Chung
▴ 200
0
votes
0
replies
49
views
News:
Online course- Advanced Python for Life Sciences
Python
MachineLearning
Programming
DataVisualisation
9 hours ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
86
views
CreateSeuratObject taking very long
seurat
updated 3 hours ago by
Nitin Narwade
★ 1.6k • written 12 hours ago by
eae6d2e7
• 0
0
votes
0
replies
58
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
13 hours ago by
Christopher
• 0
1
vote
2
replies
161
views
Elbow plot question (scRNA seq data analysis - scanpy tutorial)
scanpy
18 hours ago by
ojaswinipandey
• 0
0
votes
2
replies
130
views
Kraken2 Custom Database non-deterministic results
Metagenomics
kraken2
2 hours ago by
Bjorn
• 0
1
vote
4
replies
253
views
How to find SRA sequences of some fungal whole genome sequences if only Biosample ID is available?
SRA
whole-genome-sequencing
NCBI
updated 20 hours ago by
Ram
44k • written 21 hours ago by
Harshita
• 0
2
votes
4
replies
193
views
Filter Genome for Specific Sites
bedtools
updated 20 hours ago by
Ram
44k • written 22 hours ago by
Anita
• 0
0
votes
3
replies
210
views
Error in using BioSampleParser tool: subscript out of bounds
R
updated 18 hours ago by
marco.barr
▴ 130 • written 1 day ago by
Mohamed Samir
▴ 20
1
vote
1
reply
92
views
Generating Group/Cluster Lists from fastq files
Sequencing
RNA-seq
DNA-Seq
updated 23 hours ago by
GenoMax
142k • written 1 day ago by
niruf
• 0
0
votes
0
replies
70
views
News:
Online course: Network analysis in Systems Biology with R/Bioconductor
Bioconductor
Systems-Biology
Network-Analysis
R
updated 20 hours ago by
Ram
44k • written 1 day ago by
carlopecoraro2
★ 2.5k
2
votes
4
replies
358
views
Super ehancers
enhancers
4 hours ago by
Oburah
• 0
0
votes
1
reply
105
views
vcf phasing
beagle
WhatsHap
phasing
updated 3 hours ago by
WouterDeCoster
47k • written 1 day ago by
safeassli
▴ 10
0
votes
2
replies
180
views
How to generate an Upset plot in R to plot the shared variants between cell free DNA samples
r
Upset
22 hours ago by
sainavyav22
• 0
1
vote
2
replies
162
views
How to find identical sequences in genome fasta file (by Python or any possible program) ?
fasta
updated 23 hours ago by
Ram
44k • written 1 day ago by
Sony
▴ 10
0
votes
0
replies
79
views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
Seurat
single-cell
scRNA-seq
updated 23 hours ago by
Ram
44k • written 1 day ago by
ev97
▴ 20
0
votes
0
replies
139
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated 19 hours ago by
Ram
44k • written 1 day ago by
JorgeVallejo
▴ 20
0
votes
5
replies
217
views
Why most genes have high padj values
RNA-seq
DEG
updated 23 hours ago by
Ram
44k • written 1 day ago by
mnx0723
• 0
1
vote
3
replies
219
views
News:
ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
BestTalk
PlatformPresentation
offtopic
updated 7 hours ago by
colindaven
6.4k • written 1 day ago by
Dr.
• 0
1
vote
8
replies
443
views
Add stats to the plot
R
updated 8 hours ago by
marco.barr
▴ 130 • written 2 days ago by
Ghada
• 0
0
votes
0
replies
117
views
problems in installing rDock
rDock
updated 20 hours ago by
Ram
44k • written 2 days ago by
Rodolfo Adrián
• 0
2
votes
3
replies
325
views
Trimming tool
Trimming
updated 19 hours ago by
Ram
44k • written 3 days ago by
GeneC
• 0
4
votes
9
replies
624
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
updated 6 hours ago by
marco.barr
▴ 130 • written 5 days ago by
diqixiaoyaoer
▴ 20
1
vote
6
replies
350
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
4 hours ago by
Umer
▴ 50
0
votes
2
replies
266
views
How can I calculate the OS of each patient?
overall-survival
21 hours ago by
Pedro
• 0
0
votes
5
replies
344
views
how to treat the replicates while performing WGCNA
clustering
WGCNA
replicates
18 hours ago by
mavy
▴ 10
4
votes
10
replies
844
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
updated 9 hours ago by
Alex Reynolds
35k • written 25 days ago by
J
▴ 10
19
votes
15
replies
2.3k
views
Forum:
What is the amount of sequencing data produced annually?
data
research
sequencing
updated 6 hours ago by
Mohamed
• 0 • written 8 months ago by
vincenthus
▴ 70
46 results • Page
1 of 1
Recent Votes
Answer: converting transcript IDs (Ensembl) to gene symbols in R
Comment: Trimming tool
Answer: Trimming tool
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
Comparing ATAC-seq narrowPeak Files from Chicken and Mouse
How Do I Draw A Heatmap In R With Both A Color Key And Multiple Color Side Bars?
Comment: Practical Haplotype Graph v2 not finding correct paths
Recent Locations •
All
United States,
just now
Stony Brook University, NY,
just now
Germany,
just now
United States,
2 minutes ago
UK,
2 minutes ago
Spain,
2 minutes ago
Canada,
3 minutes ago
Recent Awards •
All
Supporter
to
Mol
• 0
Popular Question
to
Rafael Soler
★ 1.2k
Teacher
to
shelkmike
★ 1.2k
Popular Question
to
applepie
• 0
Popular Question
to
Peter Chung
▴ 200
Popular Question
to
ev97
▴ 20
Popular Question
to
Lluís R.
★ 1.2k
Recent Replies
Answer: z-score of gene set
by
Matthias Zepper
4.6k
The z-score is a measure of how many standard deviations a particular data point is from the mean of a distribution. A positive z-score ind…
Answer: converting transcript IDs (Ensembl) to gene symbols in R
by
bk11
★ 2.5k
You can do as following: library(biomaRt) # Set up the Ensembl BioMart connection ensembl <- useEnsembl(biomart = "genes",…
Comment: How can we convert a vcf to fasta, so that I can blast some genes against that w
by
Pierre Lindenbaum
161k
well you try to use FastaAlternateReferenceMaker https://gatk.broadinstitute.org/hc/en-us/articles/360037594571-FastaAlternateReferenceMak…
Comment: z-score of gene set
by
bk11
★ 2.5k
Can you please tell us what will be your propose of z-score calculation?
Comment: DRAGEN gVCF files and joint calling GATK-GenomicsDB
by
DBScan
▴ 300
I think I did it once, but why would you use GATK with DRAGEN gVCF files? If you have a DRAGEN, the iterative gVCF Genotyper does a much fa…
Answer: Practical Haplotype Graph v2 not finding correct paths
by
beantkapoor16
▴ 10
So, I just tested it and it's performing much better now. Most of the haplotype paths are coming from the expected haplotypes (australasica…
Comment: Kraken2 Custom Database non-deterministic results
by
Bjorn
• 0
Thank you!
Comment: Generating a Bed file from a Fasta file
by
Pierre Lindenbaum
161k
there is not enough information. you have to show us the command you used, a snapshot of your fasta...
Comment: Practical Haplotype Graph v2 not finding correct paths
by
beantkapoor16
▴ 10
That's great. I will test it and let you know how it goes. Thank you.
Comment: Generating a Bed file from a Fasta file
by
pirku
• 0
I tried running BLAT, but the output looks like this. Seems like none of the sequences were mapped/aligned match mis- rep. N's Q gap…
Comment: Where to find old version of GATK best practice
by
GenoMax
142k
You could try and look up a snapshot of the page(s) - https://web.archive.org/ Which specific best practice are you referring to? https:/…
Comment: Generating a Bed file from a Fasta file
by
Pierre Lindenbaum
161k
you could run blast or any other aligner to get the coordinate(s) of your fasta on a reference genome.
Answer: Running STRUCTURE from command line
by
Arthur
• 0
If it cans help, I got the same error message : There were errors in the input file (listed above). According to "mainparams" the inp…
Comment: CreateSeuratObject taking very long
by
Nitin Narwade
★ 1.6k
I am not sure whether it will speedup the conversion but you can give it a try. convert your dataframe into a sparse matrix before creatin…
Comment: Practical Haplotype Graph v2 not finding correct paths
by
pjb39
▴ 220
The timing for your question is excellent. The fix was released yesterday.
Traffic: 3293 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