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 month
all time
today
this week
this month
this year
324 results • Page
1 of 7
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
28
views
Calculated LAI is too large
annotation
LAI
assembly
TE
genome
2 hours ago by
Yao
▴ 30
0
votes
0
replies
38
views
How to recover the entire sequence from all_contig_annotations.csv?
VDJ
single-cell
TCR-seq
cellranger
10x
4 hours ago by
dawnyipingzou
• 0
0
votes
1
reply
64
views
Where to find old version of GATK best practice
gatk
updated 5 hours ago by
Pierre Lindenbaum
161k • written 5 hours ago by
Zhenyu Zhang
★ 1.2k
0
votes
1
reply
68
views
Nextflow docker: Error response from daemon
sarek
gatk4
docker
nextflow
updated 5 hours ago by
Pierre Lindenbaum
161k • written 5 hours ago by
Peter Chung
▴ 200
0
votes
0
replies
49
views
CreateSeuratObject taking very long
seurat
9 hours ago by
eae6d2e7
• 0
0
votes
0
replies
53
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
10 hours ago by
Christopher
• 0
0
votes
1
reply
112
views
Kraken2 Custom Database non-deterministic results
Metagenomics
kraken2
updated 16 hours ago by
GenoMax
142k • written 17 hours ago by
Bjorn
• 0
0
votes
3
replies
205
views
Error in using BioSampleParser tool: subscript out of bounds
R
updated 15 hours ago by
marco.barr
▴ 130 • written 1 day ago by
Mohamed Samir
▴ 20
0
votes
1
reply
83
views
vcf phasing
beagle
WhatsHap
phasing
updated 20 minutes ago by
WouterDeCoster
47k • written 21 hours ago by
safeassli
▴ 10
0
votes
0
replies
73
views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
Seurat
single-cell
scRNA-seq
updated 19 hours ago by
Ram
43k • written 1 day ago by
ev97
▴ 20
0
votes
1
reply
117
views
GO analysis: Indicate genes corresponding to the pathway
GeneOntoloy
GO
R
updated 23 hours ago by
marco.barr
▴ 130 • written 1 day ago by
sooni
▴ 20
0
votes
1
reply
89
views
How to hide label in layout file of MCscan (python version)
MCscan
updated 22 hours ago by
GenoMax
142k • written 1 day ago by
jinyi
• 0
0
votes
0
replies
68
views
ENCORI or starBase : ceRNA data retrieval using Web API and curl
ceRNA
ENCORI
curl
microRNA
starBase
1 day ago by
V_Vibes
• 0
0
votes
0
replies
128
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated 16 hours ago by
Ram
43k • written 1 day ago by
JorgeVallejo
▴ 20
0
votes
0
replies
87
views
transcriptome annotation
annotation
trinity
transcriptome
updated 21 hours ago by
Ram
43k • written 1 day ago by
Asim Bin Arshad
• 0
0
votes
5
replies
212
views
Why most genes have high padj values
RNA-seq
DEG
updated 19 hours ago by
Ram
43k • written 1 day ago by
mnx0723
• 0
0
votes
1
reply
115
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
updated 1 day ago by
ATpoint
82k • written 1 day ago by
Pegasus
▴ 100
0
votes
1
reply
130
views
PCA Visualization error in R - arguments imply differing number of rows
SNPs
PCA
GBS
LINUX
r
updated 1 day ago by
zx8754
11k • written 1 day ago by
Ali
• 0
0
votes
4
replies
234
views
GO analysis: p-value range
GO
R
updated 1 day ago by
Matthias Zepper
4.6k • written 1 day ago by
sooni
▴ 20
0
votes
0
replies
94
views
Challenges of Affymetrix probe IDs for grouping similar genes to calculate their mean
R
Mean
Affymetrix
Probes
Grouping
1 day ago by
Maryam
• 0
1
vote
8
replies
431
views
Add stats to the plot
R
updated 5 hours ago by
marco.barr
▴ 130 • written 2 days ago by
Ghada
• 0
0
votes
4
replies
321
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
rna-seq
1 day ago by
Bibi
• 0
0
votes
0
replies
108
views
handling bio replicates for chromHMM
replicates
chromHMM
1 day ago by
Hasan_Daaboul
• 0
0
votes
0
replies
100
views
Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell
communication
ligand-receptor
self-regulation
1 day ago by
DGTool
▴ 20
0
votes
0
replies
117
views
problems in installing rDock
rDock
updated 16 hours ago by
Ram
43k • written 2 days ago by
Rodolfo Adrián
• 0
1
vote
1
reply
340
views
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
CIBERSORTx
cibersort
error
RNA-Seq
deconvolution
updated 2 days ago by
nguyenn6
• 0 • written 3 months ago by
star
▴ 10
0
votes
0
replies
136
views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
R
updated 2 days ago by
Pierre Lindenbaum
161k • written 2 days ago by
Mohamed Samir
▴ 20
0
votes
0
replies
144
views
Tera-scale metagenomic coassembly tool
co-assembly
Metagenomics
2 days ago by
Moinuddin
• 0
0
votes
1
reply
186
views
Broad and Narrow peaks
ATAC
ChIP
seq
updated 3 days ago by
ATpoint
82k • written 3 days ago by
Jacek
▴ 20
0
votes
0
replies
144
views
How can i use ESM-1v ?
VEP
ESM-1v
3 days ago by
Meto
• 0
0
votes
0
replies
156
views
Cell type annotation mixed with other type cells
cell
annotation.
updated 3 days ago by
GenoMax
142k • written 3 days ago by
Long
• 0
0
votes
0
replies
148
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
3 days ago by
kilcdincer
▴ 10
0
votes
0
replies
163
views
genomic region of transcription factor
search
HOMER
motif
3 days ago by
qudrat.nii
▴ 10
1
vote
5
replies
375
views
Reconstruction of locus, order contigs
contigs
cluster
alignment
locus
updated 3 days ago by
dthorbur
★ 2.0k • written 4 days ago by
BATMAN
• 0
0
votes
6
replies
365
views
ComplexHeatmap - How to change fontsize of rowAnnotation
ComplexHeatmap
3 days ago by
hannes.bongartz
• 0
0
votes
0
replies
148
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 3 days ago by
GenoMax
142k • written 3 days ago by
yura.grabovska
▴ 90
1
vote
1
reply
202
views
constructing pangenome through psvcp
psvcp
pangenome
2 days ago by
analyst
▴ 50
1
vote
6
replies
325
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
58 minutes ago by
Umer
▴ 50
0
votes
2
replies
257
views
How to generate table_annovar from VCF input?
vcf
annovar
updated 4 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
melissachua90
▴ 70
0
votes
0
replies
134
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
4 days ago by
Varsha
• 0
0
votes
1
reply
445
views
solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* error: could not open input file /geneInfo.tab #2142
STAR
updated 4 days ago by
GenoMax
142k • written 4 days ago by
huxiangyulove
• 0
0
votes
0
replies
153
views
Help interpreting KEGG module definitions for converting to NetworkX graph
definition
kegg
module
database
genomics
4 days ago by
O.rka
▴ 720
0
votes
4
replies
351
views
Merge clusters in Seurat UMAP
seurat
umap
4 days ago by
kilcdincer
▴ 10
0
votes
0
replies
159
views
Use of ichor CNA
Dog
CNA
genome
4 days ago by
sainavyav22
• 0
2
votes
2
replies
285
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 4 days ago by
Ram
43k • written 4 days ago by
txema.heredia
▴ 130
0
votes
0
replies
162
views
Error when running create-maf-vcf at convertGVCFToHVCFForChrom step - PHGv2
PHG
pangenome
PHG_v2
4 days ago by
Jsarria.EEAD
• 0
0
votes
2
replies
265
views
How can I calculate the OS of each patient?
overall-survival
18 hours ago by
Pedro
• 0
0
votes
0
replies
154
views
cat-bgen fail
bgenix
updated 4 days ago by
Ram
43k • written 4 days ago by
lambard
• 0
1
vote
1
reply
205
views
API kegg - IndexError: list index out of range
kegg
API
updated 4 days ago by
Nyksubuz
▴ 20 • written 5 days ago by
mirwa.zidi93
• 0
0
votes
0
replies
146
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
5 days ago by
ebertomeup
• 0
324 results • Page
1 of 7
Recent Votes
Comment: What marks a De-Novo Genome assembly as FAILED?
A: How to extract specific chromosome from vcf file
A: How To Filter Mapped Reads With Samtools
C: Filtering A Sam File For Quality Scores
A: Filtering A Sam File For Quality Scores
Comment: Super ehancers
Comment: How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
Recent Locations •
All
Tunisia,
1 minute ago
London,
2 minutes ago
USA/Ithaca,NY/USDA-ARS,
2 minutes ago
France,
4 minutes ago
Portugal,
5 minutes ago
South Africa,
6 minutes ago
Bologna,
8 minutes ago
Recent Awards •
All
Popular Question
to
ev97
▴ 20
Popular Question
to
Lluís R.
★ 1.2k
Popular Question
to
Gabriel R.
★ 2.9k
Scholar
to
diqixiaoyaoer
▴ 20
Centurion
to
marco.barr
▴ 130
Popular Question
to
Peter Chung
▴ 200
Popular Question
to
Yao
▴ 30
Recent Replies
Comment: Practical Haplotype Graph v2 not finding correct paths
by
pjb39
▴ 210
The timing for your question is excellent. The fix was released yesterday.
Comment: vcf phasing
by
WouterDeCoster
47k
> I observed that it doesn't phase genotypes labeled as 0/0 How could such a genotype even be phased?
Comment: Super ehancers
by
Oburah
• 0
Well-noted however just wondering what you me by GFF being shorter. Thank you![See the screeshot snap of the gff file][1] [1]: /media/i…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴ 50
I know illumina will only give me high-quality contigs. the samples which are to be sequenced with Long_Short read sequence will be used as…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴ 50
Hi, Thank you for a detailed responce. Let me add some more informations. Long-Read is ~75X coverage. Short-Read is ~100X coverage. **For…
Answer: Pruning Phylogenetic Trees and Bootstrap Values
by
Klaus S
▴ 160
The best is to prune the tree and also the bootstrap trees and afterwards re-assign the bootstrap values to the tree. The bootstrap values …
Comment: What is the amount of sequencing data produced annually?
by
Mohamed
• 0
Here's a more neat version of the plot generated while writing my dissertation: ![enter image description here][1] [1]: https://raw.gi…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
marco.barr
▴ 130
what a pity...
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
▴ 20
Yes, I can. But there are only two factors that affect my data PCA distribution: groups and donor. And the rest is regarded as residual. …
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
colindaven
6.4k
Please delete this as it has nothing to do with the topic of this forum, bioinformatics. Thanks
Comment: Add stats to the plot
by
marco.barr
▴ 130
if don't work try binding the stats without group. stat_data4 <- data4.ts %>% ungroup() %>% t.test(data = ., value ~ Cond…
Comment: Nextflow docker: Error response from daemon
by
Pierre Lindenbaum
161k
you should ask : https://github.com/nf-core/sarek/issues/
Comment: Where to find old version of GATK best practice
by
Pierre Lindenbaum
161k
https://github.com/gatk-workflows ?
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
Alex Reynolds
35k
Hi, if you can please post a separate question with inputs and expected output, reply here with a link to it, and I'll take a look.
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴ 10
Hi again Alex, sorry to ask another question about this, but how can I tweak this code to keep **all** of the SNPs that pass the threshold …
Traffic: 2611 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