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
50 results • Page
1 of 1
Sort: Views
Rank
Views
Votes
Replies
2
votes
6
replies
1.9k
views
How can you *consistently* download BioProject IDs from NCBI's BioSample database using Entrez Direct?
XML
ncbi
entrez-direct
updated 20 hours ago by
Ram
43k • written 3.9 years ago by
millere
• 0
0
votes
9
replies
594
views
Using VEP annotation output as the input for a second VEP annotation
Annotation
VEP
VCF
20 hours ago by
Arton
▴ 10
0
votes
1
reply
514
views
scRNAseq quality control weird double curve in nFeature vs nCount plot
scRNA-seq
QC
single
cell
BDRhapsody
analysis
updated 13 hours ago by
valdirbarth
▴ 20 • written 12 months ago by
Salomé
• 0
1
vote
8
replies
437
views
DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts in whole blood: is it normal to always get NS?
rstudio
DEG
limma
updated 6 hours ago by
ATpoint
82k • written 1 day ago by
egascon
• 0
1
vote
12
replies
361
views
Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NULL > pointer.
blast
ncbi
18 minutes ago by
hophuquy0944
• 0
0
votes
9
replies
327
views
Duplicated reads (IDs) from nanopore sequencing
bam
nanopore
sequencing
11 hours ago by
njornet
▴ 20
3
votes
4
replies
298
views
finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame (uORF)"
UTR
masspec
uORF
peptide
updated 4 hours ago by
GenoMax
142k • written 8 hours ago by
Pierre Lindenbaum
161k
0
votes
5
replies
270
views
bbmerge (bbmap) ~ error with insert size file output
bbtools
bbmerge
bbmap
updated 16 hours ago by
GenoMax
142k • written 1 day ago by
chrisk
• 0
1
vote
4
replies
260
views
Add stats to boxplot in R
stats
R
23 hours ago by
Ghada
• 0
1
vote
4
replies
260
views
Filtering VCF files based on VAF giving incorrect results
bcftools
GATK
Bioinformatics
picard
VCF
20 hours ago by
Arton
▴ 10
1
vote
4
replies
231
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
1 hour ago by
diqixiaoyaoer
▴ 10
0
votes
4
replies
230
views
calculating genomic coverage/ base overlap in R
genomics
updated 3 hours ago by
Ram
43k • written 1 day ago by
Xbox_27
• 0
1
vote
5
replies
223
views
Annotating file using bcftools
annotation
plink
bcftools
3 hours ago by
kl
▴ 10
1
vote
3
replies
222
views
Is there any way to modify this pie chart ?
pie
ggplot
R
chart
updated just now by
GenoMax
142k • written 2 days ago by
ohtang7
▴ 40
0
votes
2
replies
215
views
Inquiry about deseq2 transformation
RNA-seq
deseq2
19 hours ago by
Chen
• 0
3
votes
3
replies
210
views
Getting differential ChIP-seq peaks between conditions after calling consensus peaks
MAnorm
ChIP-seq
consensus
peaks
updated 9 hours ago by
ATpoint
82k • written 1 day ago by
Alexandra
• 0
1
vote
2
replies
207
views
Doubt about the process of annotation, detection, identification and classification of transposable elements
annotation
TransposableElements
21 hours ago by
MarcosCosta
• 0
2
votes
4
replies
204
views
Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer version?
RNA-seq
genome
updated 3 hours ago by
Ram
43k • written 10 hours ago by
Ali
• 0
0
votes
4
replies
203
views
Sequencing Depth (Read Depth) Calculations
depth
15 hours ago by
LucisTheFather
• 0
2
votes
4
replies
192
views
Can 5' and 3' scRNAseq be processed with the same pipeline?
singlecell
seurat
10XGenomics
scRNAseq
1 hour ago by
ev97
▴ 20
1
vote
2
replies
191
views
Why does assigning genes with biomart give me different values than using a transcripts_to_genes.txt file?
biomart
RNAseq
kallisto
2 hours ago by
bioinfo
▴ 150
1
vote
1
reply
182
views
Calculate allelic frequency from VEP output vcf file
VEP
variant
20 hours ago by
ramiro.barrantes
• 0
0
votes
3
replies
182
views
How to extract cells of different species after mapping with combined genome?
snrnaseq
scrnaseq
updated 5 hours ago by
GenoMax
142k • written 19 hours ago by
vk
▴ 10
0
votes
4
replies
174
views
Tool:
Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Minutes
Decimal
Degrees
python
Degree
offtopic
12 hours ago by
kuttibiotech2009
▴ 30
0
votes
5
replies
172
views
Can I perform a correlation test with 3 biological replicates per condition?
deseq2
RNA-Seq
correlation
gene
replicate
updated 5 hours ago by
ATpoint
82k • written 7 hours ago by
manuelmourato25
• 0
0
votes
2
replies
159
views
perseus software (version 1.5.5)
preseus
mass
spectrometry
data
updated 6 hours ago by
DGTool
▴ 20 • written 1 day ago by
iqra
• 0
1
vote
3
replies
157
views
ggrepel function: geom_text_repel()
ggrepel
ggplo2
R
9 hours ago by
sooni
▴ 20
2
votes
2
replies
152
views
Cannot install bwa-mem2 via conda
conda
mamba
python
updated 3 hours ago by
Ram
43k • written 1 day ago by
jsmith120f
• 0
0
votes
1
reply
128
views
Seurat v5 and how to correctly integrate across multiple experiments
Seurat
scRNA
R
updated 6 hours ago by
Papyrus
★ 2.9k • written 1 day ago by
yura.grabovska
▴ 90
0
votes
2
replies
126
views
how to treat the replicates while performing WGCNA
clustering
WGCNA
replicates
11 hours ago by
mavy
▴ 10
0
votes
1
reply
120
views
Difference in number of reads when using duplex and simplex base calling with Dorado
base
calling
nanopore
simplex
dorado
duplex
updated 3 hours ago by
GenoMax
142k • written 1 day ago by
Lélé
▴ 10
0
votes
1
reply
115
views
What's next after GATK variant calling pipeline?
GATK
pipeline
figures
DNA-seq
updated 9 hours ago by
Michael
54k • written 21 hours ago by
mgranada3
▴ 30
0
votes
2
replies
106
views
Details on salmon index
Salmon
updated 1 hour ago by
Rob
6.5k • written 8 hours ago by
Lorenzo
• 0
3
votes
3
replies
102
views
getting exon coordinates
genomics
updated 3 hours ago by
Ram
43k • written 4 hours ago by
Xbox_27
• 0
0
votes
1
reply
97
views
Sam file Header problem
Sam
Header
problem
file
updated 10 hours ago by
Pierre Lindenbaum
161k • written 11 hours ago by
saifulislam99121
• 0
1
vote
2
replies
89
views
Faster Needleman-Wunsch rapid global alignment of two sequences?
Needleman-Wunsch
alignment
updated 4 hours ago by
GenoMax
142k • written 4 hours ago by
Gabriel R.
★ 2.9k
0
votes
0
replies
74
views
Add line under stat test
stats
R
22 hours ago by
Ghada
• 0
1
vote
0
replies
75
views
Tool:
Collect dispersed executable files and run them by using bingo.
bingo
14 hours ago by
dwpeng
▴ 10
0
votes
0
replies
74
views
DOCK6 installation on MacOS M1
installation
troubleshooting
DOCK6
updated 23 hours ago by
GenoMax
142k • written 1 day ago by
Rodolfo Adrián
• 0
0
votes
1
reply
72
views
mitochondrial genome assembly pipeline
mammals
mitochondrial-genome
updated 3 hours ago by
Ram
43k • written 5 hours ago by
m90
▴ 30
0
votes
0
replies
64
views
select set of intervals that cover a genomic region
GRanges
bed
13 hours ago by
ntsopoul
▴ 60
0
votes
1
reply
60
views
How can I calculate the OS of each patient?
overall-survival
updated 2 hours ago by
ATpoint
82k • written 3 hours ago by
Pedro
• 0
0
votes
0
replies
59
views
BiomartException: Query ERROR for existing dataset in BioMart
biomart
ensembl
wheat
python
pybiomart
15 hours ago by
Luqman
• 0
0
votes
0
replies
55
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
11 hours ago by
ebertomeup
• 0
0
votes
0
replies
52
views
API kegg - IndexError: list index out of range
kegg
API
Error
8 hours ago by
mirwa.zidi93
• 0
0
votes
0
replies
47
views
Blog:
The Current State and Future Prospects of Long-Read Sequencing
LRS
10 hours ago by
Novogene
▴ 420
0
votes
0
replies
32
views
cat-bgen fail
bgenix
updated 3 hours ago by
Ram
43k • written 3 hours ago by
lambard
• 0
0
votes
0
replies
31
views
Error when running create-maf-vcf at convertGVCFToHVCFForChrom step - PHGv2
PHG
pangenome
PHG_v2
2 hours ago by
Jsarria.EEAD
• 0
0
votes
0
replies
14
views
News:
Course on Manual Genome Curation
GenomeAssembly
PretextView
Manual-Genome-Curation
1 hour ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
12
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
cell
RNA
single
ambient
32 minutes ago by
txema.heredia
▴ 110
50 results • Page
1 of 1
Recent Votes
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
A: How count reads
Answer: Probe annotation file for microarray platform MoGene-1_0-st-v1
Comment: Can 5' and 3' scRNAseq be processed with the same pipeline?
C: Splitting .vcf file
Answer: Grouping datasets in Seurat
Answer: How should I make kallisto indexes?
Recent Locations •
All
The Netherlands,
just now
Italy,
just now
United States,
6 minutes ago
Bologna,
7 minutes ago
United States,
10 minutes ago
United States,
10 minutes ago
United States,
12 minutes ago
Recent Awards •
All
Popular Question
to
carlopecoraro2
★ 2.5k
Scholar
to
GenoMax
142k
Popular Question
to
ben@f
▴ 20
Popular Question
to
Jalil Sharif
▴ 80
Popular Question
to
biology_inform
▴ 50
Scholar
to
nd48
▴ 20
Teacher
to
aw7
▴ 300
Recent Replies
Comment: Is there any way to modify this pie chart ?
by
marco.barr
▴ 120
Try following the same logic as the guide which adds the labels about halfway through each pie slice value. Check column's name in script b…
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
sorry for that, this is first time i use it.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
thank sir, i will check it again
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
▴ 10
Ok, I will response to you here as soon as possible.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
GenoMax
142k
How much memory do you have available? For `nt` database you are going to need 30-40G minimum. You may simply be running out of memory.
Comment: Can 5' and 3' scRNAseq be processed with the same pipeline?
by
ev97
▴ 20
Noted! Thanks very much for your help!
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
i'm using linux. I was use 3 file.fasta to debug and it is nucleotide file, and my blast -h still work > (/data/quyho/tools/mgs2amr_tool…
Answer: Details on salmon index
by
Rob
6.5k
Hi Lorenzo, Thanks for your question. First, I'd like to clarify that several substantial updates have been made to salmon since its …
Comment: Can 5' and 3' scRNAseq be processed with the same pipeline?
by
yura.grabovska
▴ 90
sc/snRNASeq tends to have differences in things like mitochondrial genes etc, which you can account for using tools like SCTransform but in…
Comment: Why does assigning genes with biomart give me different values than using a tran
by
bioinfo
▴ 150
Thank you! I ended up using the transcripts_to_genes instead of biomart.
Comment: How can I calculate the OS of each patient?
by
ATpoint
82k
Please be specific. Which TCGA subset, what did you try? Show code.
Answer: mitochondrial genome assembly pipeline
by
shelkmike
★ 1.2k
A good tool for mitochondrial genome assembly is GetOrganelle (https://github.com/Kinggerm/GetOrganelle)
Comment: getting exon coordinates
by
Ram
43k
Please do not use `bioinformatics` as a tag unless your post in about the field of bioinformatics itself.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
Ram
43k
I've removed unneccessary tags - `meta` and `how-to` don't apply to this post at all, and the `forum` tag is not in use anymore.
Comment: Difference in number of reads when using duplex and simplex base calling with Do
by
GenoMax
142k
I assume you have posted this in nanopore community and/or on the dorado issues page on GitHub. Please come back and post an update once yo…
Traffic: 2545 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