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122,232 results • Page
13 of 2445
Sort: Rank
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Votes
Replies
0
votes
1
reply
7.7k
views
Single cell multiomics data i.e, sc(RNA+ATAC) seq data tar file
single
omics
cell
multi
updated 3 months ago by
ATpoint
90k • written 3 months ago by
Rupanjali
• 0
5
votes
4
replies
8.0k
views
Rust-HTSlib Script Only Outputs BAM Header, Records Are Missing
Rust
BAM
rust_htslib
3 months ago by
plusone
▴ 50
4
votes
2
replies
6.9k
views
galaxy and RNA seq
seq
RNA
3 months ago by
nmozdoori
▴ 20
0
votes
0
replies
6.4k
views
DIABLO Multi-omics Integration
How
results
interpret
DIABLO
to
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Haya
• 0
2
votes
1
reply
7.6k
views
Which metric is best to represent cell-level counts/features in Seurat: raw/log-normalized (nCount_RNA/nFeature_RNA) or SCTransform (nCount_SCT/nFeat…
R
visualization
updated 3 months ago by
ATpoint
90k • written 3 months ago by
solo.albif
• 0
0
votes
2
replies
6.3k
views
Job:
Help with bioinformatics/genetics content of my CV
terminology
CV
updated 3 months ago by
Anchal
• 0 • written 3 months ago by
mairena.hirschberg
• 0
0
votes
3
replies
3.8k
views
Where can I get Human microbiome dataset
microbiome
human
data
updated 3 months ago by
Arup Ghosh
3.5k • written 3 months ago by
Emily
▴ 70
0
votes
15
replies
7.7k
views
chimeraTE GTF format error
chimeraTE
updated 3 months ago by
lieven.sterck
16k • written 3 months ago by
frarodmar17
• 0
6
votes
6
replies
3.1k
views
Estimating copy number of heterologous genes from WGS data in Yarrowia lipolytica
wgs
CNVs
copy-number
updated 3 months ago by
colindaven
8.1k • written 3 months ago by
Giorgia
▴ 10
0
votes
0
replies
2.9k
views
News:
online course (4th edition): Structural Variant Detection & Comparison
LongReads
Nanopore
PacBio
StructuralVariations
3 months ago by
Physalia-courses
★ 2.7k
1
vote
0
replies
2.9k
views
News:
Cellosaurus release 53 + new SPARQL/RDF functionalities
database
biocuration
line
knowledgebase
cell
3 months ago by
Amos Bairoch
▴ 140
0
votes
2
replies
3.0k
views
Relative viral load estimation from NGS data – is it possible?
virology
updated 3 months ago by
Mark
★ 1.7k • written 3 months ago by
omicon
▴ 40
1
vote
1
reply
2.5k
views
primer
primer
updated 3 months ago by
GenoMax
154k • written 3 months ago by
elahe
• 0
0
votes
0
replies
2.6k
views
Help installing and running PITA & PicTar for miRNA target prediction
microRNA
PITA
PicTar
updated 3 months ago by
Ram
45k • written 3 months ago by
Andie
• 0
1
vote
3
replies
3.1k
views
Splitting VCF using phase information
phasing
bcftools
vcf
updated 3 months ago by
cmdcolin
★ 4.4k • written 3 months ago by
Kyra
• 0
0
votes
0
replies
2.6k
views
Generating VCF file from Illumina MEGA array
strand
VCF
SNP
illumina
microarray
3 months ago by
112233
• 0
3
votes
2
replies
2.5k
views
High discrepancy between mutation frequency values
MF
AF
gnomAD
TCGA
3 months ago by
Ana
▴ 10
9
votes
4
replies
2.7k
views
How to troubleshoot strange hyperparameter trace from BSLMM (GEMMA)
gemma
gwas
bslmm
3 months ago by
gina.maria
▴ 60
0
votes
1
reply
2.1k
views
Mean count in DESeq
in
DESeq
count
Mean
updated 3 months ago by
GenoMax
154k • written 3 months ago by
prerna
• 0
8
votes
11
replies
3.9k
views
is there publicly available tool for assembly of bionano data
OM
bionano
assembly
alignment
3 months ago by
eebloom
▴ 110
3
votes
4
replies
9.5k
views
7 follow
Any bacterial databases that contain Gram staining information?
gram-positive
gram-negative
written 9.4 years ago by
archaeopteryx
• 0
0
votes
1
reply
2.7k
views
detectRUNS R package error
mapping
detectRUNS
R
ROH
homozygosity
updated 3 months ago by
Miika
• 0 • written 3.3 years ago by
Roisin Marie
• 0
3
votes
1
reply
2.1k
views
Visualisation of big insertions by using Illumina emedgene
emedgene
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Nina
▴ 30
2
votes
5
replies
2.4k
views
Integrity of bam files
integrity
RAN-seq
bam
samtools
3 months ago by
SHN
▴ 40
0
votes
0
replies
2.4k
views
News:
Course: RNA Sequencing Data with R/Bioconductor - online, 3–14 November
RNAseq
DifferentialExpressionAnalysis
R
Bioconductor
3 months ago by
Physalia-courses
★ 2.7k
0
votes
2
replies
3.1k
views
Clumping- cannot mtfrm
clumping
MR
updated 3 months ago by
Onyeubani
▴ 90 • written 10 months ago by
sp
• 0
0
votes
2
replies
1.5k
views
What is the best practice for scRNAseq analysis of multiple samples?
scRNAseq
seurat
single
cell
3 months ago by
Tundup
▴ 10
0
votes
0
replies
1.6k
views
Forum:
Trying to get into Drug Design & Molecular Docking
Docking
Biochemistry
Ligands
updated 3 months ago by
Ram
45k • written 3 months ago by
Shreyas
• 0
0
votes
3
replies
1.6k
views
DESeq2 - Changing the order of counts / metadata
counts
metadata
DESeq2
3 months ago by
himanshu0102
• 0
9
votes
7
replies
3.6k
views
Marker genes of hematopoietic stem cells for cluster annotation in single-cell analysis
single-cell
cluster-annotation
hsc
marker-gene
updated 3 months ago by
ATpoint
90k • written 3.2 years ago by
Ribo
▴ 80
0
votes
1
reply
1.4k
views
Problem with Dfam-Database and the RepeatClassifier function of repeat modeler
dfam
repeat-annotation
TE-database
repeat-masking
repeatmodeller
updated 3 months ago by
GenoMax
154k • written 3 months ago by
WaspInSpace
• 0
2
votes
1
reply
729
views
Construction of a pangenome using multiple genome sequences and read data
vg
updated 3 months ago by
colindaven
8.1k • written 3 months ago by
shcho
• 0
0
votes
1
reply
573
views
Leafcutter installation issue
Leafcutter
Conda
Devtools
updated 3 months ago by
michael.ante
★ 4.0k • written 3 months ago by
jyotik
• 0
1
vote
0
replies
676
views
How to interpret and filter vg call output VCF
graph
genotyping
pangenome
vg
VCF
3 months ago by
Tobias
▴ 40
1
vote
1
reply
708
views
Transcriptome splicing analysis tools
RNA-sequencing
splicing
updated 3 months ago by
Ram
45k • written 3 months ago by
Morris_Chair
▴ 370
0
votes
2
replies
773
views
running featureCounts on multiple bam files
RNAseq
R
updated 3 months ago by
Ram
45k • written 3 months ago by
Mamta
• 0
1
vote
3
replies
823
views
Creating sliding window for methylation data
WGBS
methylation
updated 3 months ago by
Alex Reynolds
36k • written 3 months ago by
ty.fu
• 0
0
votes
0
replies
599
views
Running time of determining graph multiplicity in unicycler
hydrid
genome
unicycler
assembly
3 months ago by
德水
• 0
0
votes
1
reply
951
views
How to get REF/ALT allele for a list of rsid and SNP notations
BED
R
Variant
VCF
SNP
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Meisam
▴ 250
4
votes
2
replies
659
views
CTCF binding sites
genome
GENCODE
annotations
3 months ago by
pt.taklifi
▴ 70
0
votes
0
replies
907
views
News:
Workshop: Virtual RNA-seq (de novo), August 19–21
workshop
RNASeq
UConn
3 months ago by
zsc25001
▴ 10
1
vote
4
replies
807
views
Only 35 out of 800 genes in STAR reference assembly
RNAseq
transcriptomics
RNA_seq
STAR
RNA_sequencing
3 months ago by
Jasper
• 0
0
votes
0
replies
541
views
Purpose and necessity of removing PCR duplicates in m6A-seq analysis
PCR
MeRIP-seq
m6A-seq
duplicates
3 months ago by
remagen
▴ 10
0
votes
8
replies
1.4k
views
Efficiently Converting CD-HIT-EST Clusters into .fasta Files
python
MSA
clustering
cd-hit
updated 3 months ago by
Joe
22k • written 3 months ago by
mtsrn
• 0
0
votes
0
replies
511
views
Concatenation of adata and losing .var
single
seq
cell
RNA
scanpy
3 months ago by
bioinfo
▴ 160
0
votes
0
replies
501
views
Integrating and annotating multiple samples of single cell ATAC data
signac
seurat
scATAC
3 months ago by
AB
▴ 390
4
votes
2
replies
1.8k
views
combine hifiasm and hifiasm-ont assemblies.
wgs
ngs
genomics
sequencing
updated 3 months ago by
shelkmike
★ 1.8k • written 3 months ago by
Mark
▴ 60
0
votes
4
replies
1.3k
views
Domains of protein
Domains
Protein
fasta
written 22 months ago by
brunofelicianodeomena
• 0
0
votes
1
reply
669
views
CYTOHUBA QUESTION (cluepedia)
cytoscape
cluepedia
NETWORK
updated 3 months ago by
churas.camera
▴ 20 • written 4 months ago by
hwangseok1025
• 0
3
votes
3
replies
882
views
snpEff custom database not found
docker
snpeff
updated 3 months ago by
Arup Ghosh
3.5k • written 3 months ago by
sg197
▴ 40
122,232 results • Page
13 of 2445
Recent Votes
Comment: Data integration single cell using Harmony
Answer: Feature Counts vs Salmon quantification
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Question about variant calling method using pangenome-graph
Comment: SyntaxError in file /snakefile, line 22: invalid decimal literal: None
Answer: Is this Rosalind inspired project actually useful?
Answer: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
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Comment: "sortmerna" quitting early--is this is a memory issue?
by
Andrew
• 0
Ok, here's the output: https://pastebin.com/uEHSckHS This run had the working directory in the default location, in sortmerna\run, but it …
Answer: Problems in Molecular Docking in Autodock vina
by
Anonsirs
• 0
Try to re run the command by first starting meeko and rdkit . to convert PDB files to PDQT files. It can help vina recognize the atom . a…
Comment: "sortmerna" quitting early--is this is a memory issue?
by
Andrew
• 0
Do you mean the maximum % RAM usage it reaches right before the moment it quits? As I said, the computer has 16 GB RAM, and the run fails w…
Comment: Chip-seq analysis Diffbind
by
Irene
▴ 10
Thank you very much for always answering my doubts and questions. I truly value and appreciate it because it helps me understand the result…
Comment: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
by
firefox91
▴ 10
Many thanks !
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
GenoMax
154k
> I have access to both the raw reads and the previously assembled transcriptome submitted to TSA. and > I am trying to determine wheth…
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
dthorbur
★ 3.2k
There are a few factors to consider: **The quality of the existing reference.** If there is a high quality chromosome level assembly,…
Comment: "sortmerna" quitting early--is this is a memory issue?
by
colindaven
8.1k
Pls add the output and your system (especially RAM), no one here can guess.
Answer: Power calculations for differentially methylated DNA samples from sequencing
by
colindaven
8.1k
There are software packages for power analysis such as https://academic.oup.com/bioinformaticsadvances/article/5/1/vbaf150/8173951.
Comment: Data integration single cell using Harmony
by
Arup Ghosh
3.5k
Run QC for each sample separately, then merge run SCTransform, PCA, then Harmony, UMAP, FindNeighbors and FindClusters.
Comment: Data integration single cell using Harmony
by
_deb
• 0
Thank you for the quick answer. I still have a doubt. It would be better to pre-process each sample separately (*filtering, SCTransform…
Comment: Issue while running Kenddata.
by
rana.elromh
• 0
I checked the memory before executing this command. I made a bash script on Ubuntu to run it on 15 folders. But, this problem happened in f…
Comment: Prokka output genes clusterization by function
by
Mensur Dlakic
★ 30k
Many proteins have multiple domains, and are correctly classified with multiple KO numbers. That's not a bug in `kofam_scan` but rather a r…
Comment: mapping sequences on specific region of bacteria genome
by
samuel.a.odonnell
▴ 650
If you want to visualise the mapping; take a look at using IGV. It just requires the genome you used to map the reads and the BAM output (n…
Comment: Prokka output genes clusterization by function
by
shevch2009
▴ 20
Thanks, I had completely forgotten that METABOLIC works with protein sequences. That will work :) I was just trying to figure out how peop…
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