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116,840 results • Page
1 of 2337
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What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
just now by
Shae
• 0
0
votes
1
reply
65
views
Enhanced Volcano-Cut off
foldchange
enhancedvolcano
updated 1 hour ago by
marco.barr
▴ 90 • written 10 hours ago by
odi
▴ 10
0
votes
4
replies
64
views
Importing a fastq file
Fastq
1 hour ago by
oumo
• 0
0
votes
6
replies
2.0k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 2 hours ago by
zylcc2
• 0 • written 3.2 years ago by
gs000095
▴ 10
795
votes
167
replies
143k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
0
votes
1
reply
33
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 2 hours ago by
andres.firrincieli
3.6k • written 2 hours ago by
kacollier
▴ 30
0
votes
0
replies
29
views
Server or aws cloud- which one is better for gatk pipeline
aws
server
calling
gatk
cloud
variant
3 hours ago by
ashaneev07
▴ 20
1
vote
2
replies
1.4k
views
Seurat CellCycleScoring – confused about the proper order of operations when using SCTransform
CellCycleScoring
SCTransform
Seurat
updated 5 hours ago by
Li
• 0 • written 2.3 years ago by
GPM
▴ 10
0
votes
0
replies
43
views
Summary Statistics SNPs not found in Target data
SNP
plink
PRS
updated 6 hours ago by
Ram
43k • written 6 hours ago by
curious_butterfly
• 0
0
votes
0
replies
46
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
7 hours ago by
Zeng Hao
▴ 40
0
votes
1
reply
85
views
Contig assembly task, errors
genetics
contig
assembly
dna
bioinformatics
updated 7 hours ago by
GenoMax
142k • written 9 hours ago by
rackbersingh
• 0
0
votes
1
reply
93
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 9 hours ago by
Pierre Lindenbaum
161k • written 10 hours ago by
Matthew
• 0
0
votes
1
reply
81
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 5 hours ago by
Ram
43k • written 10 hours ago by
cput
• 0
0
votes
0
replies
58
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
11 hours ago by
asalimih
▴ 60
0
votes
4
replies
288
views
Filtering Multi-sample VCF file for all except one Genotype
variant
SNP
VCF
12 hours ago by
schmince
• 0
0
votes
1
reply
116
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
11 hours ago by
Prawesh
• 0
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 13 hours ago by
Emanoelle
• 0 • written 5.7 years ago by
Elizabeth
▴ 30
0
votes
1
reply
116
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 13 hours ago by
marco.barr
▴ 90 • written 16 hours ago by
elisheva
▴ 120
0
votes
0
replies
56
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 12 hours ago by
Ram
43k • written 15 hours ago by
mathavanbioinfo
▴ 90
0
votes
1
reply
208
views
Seurat V5 integration
Seurat
integration
updated 12 hours ago by
Ram
43k • written 3 days ago by
starswillfade
▴ 10
0
votes
2
replies
169
views
Error in plotting PCA plot in seurat
PCA
single-cell
seurat
scRNA
RNA
updated 12 hours ago by
Ram
43k • written 1 day ago by
Sumeet
• 0
0
votes
0
replies
72
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 12 hours ago by
Ram
43k • written 16 hours ago by
carlopecoraro2
★ 2.5k
4
votes
5
replies
3.3k
views
How to compare compare two Sam files to check mapping
alignment
updated 17 hours ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
112
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 17 hours ago by
GenoMax
142k • written 17 hours ago by
madders73
• 0
4
votes
2
replies
199
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
6 hours ago by
mnx0723
• 0
3
votes
4
replies
3.9k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 20 hours ago by
chloek88
• 0 • written 5.5 years ago by
Philipp Bayer
8.4k
0
votes
3
replies
204
views
RNA seq analysis
DESeq
RNA-seq
updated 13 hours ago by
Ram
43k • written 21 hours ago by
prifa
• 0
10
votes
3
replies
254
views
TFs and Gene databases
Transcription-factor
Target
Regulatory-Networks
updated 22 hours ago by
b.contreras.moreira
▴ 180 • written 1 day ago by
ijarne
• 0
0
votes
0
replies
103
views
Chance for trained without experience
bio
updated 21 hours ago by
ATpoint
82k • written 22 hours ago by
shehab
• 0
1
vote
2
replies
146
views
How do I change the title font size in ViolinPlot (Seurat)
Seurat
Violin-Plot
ggplot2
patchwork
22 hours ago by
Assa Yeroslaviz
★ 1.8k
0
votes
0
replies
78
views
Xenium multi sample data
batch
annotation
cell
Xenium
effect
23 hours ago by
Omics data mining
▴ 260
0
votes
2
replies
134
views
Phasing a mixture of two individuals' DNA with long reads
long-reads
phasing
21 hours ago by
njornet
▴ 20
0
votes
2
replies
161
views
Exploring Diet Effects in Single-Cell RNA Sequencing
batch_effect
scRNA
seurat
integration
updated 16 hours ago by
Adam
▴ 30 • written 1 day ago by
Darya
• 0
0
votes
5
replies
200
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 20 hours ago by
Joe
21k • written 1 day ago by
Lemonhope
• 0
0
votes
0
replies
115
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
1 hour ago by
Winter
• 0
0
votes
5
replies
248
views
A question about reference genome for creating the consensus sequence
fasta
fa
cram
genome
18 hours ago by
me
• 0
2
votes
11
replies
2.6k
views
6 follow
CNVKIT - unable to produce scatter and diagram pdfs
cnvkit
updated 1 day ago by
DGTool
• 0 • written 4.8 years ago by
ww22runner
▴ 60
2
votes
1
reply
106
views
java out of memory error through beagle for imutation
beagle
java.out.of.memory
imputation
1 day ago by
analyst
▴ 50
0
votes
0
replies
70
views
Generating .bed file and .map file for polyploid vcf file through plink
bed
polyploid
map
plink
1 day ago by
analyst
▴ 50
0
votes
0
replies
68
views
Blog:
Introduction to The Complete Sequence of a Human Genome
biotech
1 day ago by
usa.cd.genomics
• 0
0
votes
0
replies
73
views
Blog:
Overview of Nanopore Sequencing
biotech
1 day ago by
usa.cd.genomics
• 0
0
votes
0
replies
82
views
meffil.snp.concordance
meffil
methylation
snp_concordance
1 day ago by
kyj222637
• 0
0
votes
1
reply
122
views
PseudobulkExpression.Seurat error
Seurat
pseudo-bulk
updated 18 hours ago by
Bastien Hervé
5.3k • written 1 day ago by
sooni
▴ 20
1
vote
5
replies
389
views
HCL database download
HCL
updated 1 day ago by
Ram
43k • written 5 days ago by
sooni
▴ 20
0
votes
1
reply
236
views
barcode of TCR-sequencing
barcode
updated 1 day ago by
mizraelson
▴ 60 • written 8 days ago by
yueli7
▴ 250
0
votes
3
replies
196
views
STAR aligner error
RNA-seq
STAR
slurm
updated 13 hours ago by
Ram
43k • written 1 day ago by
M.
▴ 30
0
votes
0
replies
86
views
monocle 3-- Could not get node in small cluster
monocle3
1 day ago by
synat.keam
▴ 100
0
votes
2
replies
183
views
Correlating Bulk Differential Expression with quantitative
Differential-Expression
DESeq2
17 hours ago by
Nicholas
• 0
1
vote
4
replies
342
views
Understanding STAR output (Aligned.out.sam file)
STAR
paired-end
read
1 day ago by
heelpPlease
• 0
0
votes
7
replies
436
views
Applying the metacell2 algorithm using python
python
single-cell
scanpy
metacell2
updated 16 hours ago by
Wayne
★ 2.0k • written 2 days ago by
JACKY
▴ 140
116,840 results • Page
1 of 2337
Recent Votes
Comment: Problem with Seurat package in PercentageFeatureSet function
Answer: Can I merge Hi-C fastq files from different lanes?
A: How to get SNP identifiers from VCF file?
Answer: How can I analyze normalized expression data?
Answer: How can I analyze normalized expression data?
Answer: Pruning Phylogenetic Trees and Bootstrap Values
Difference between Pysam Pileup and Fetch
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Popular Question
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Gordon Smyth
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kacollier
▴ 30
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rackbersingh
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Recent Replies
Comment: Pluritest for pluripotency broken
by
DGTool
• 0
Hi, just a question, were you able to find a way to get it to work locally? My understanding from looking around seems to be at least so fa…
Comment: Problem with Seurat package in PercentageFeatureSet function
by
Yoosef
▴ 60
Thanks a lot for your response. Today, I finally understood what my problem was. I have used CreateAssayObject function, while I should ha…
Comment: Correlation Analysis
by
Researcher
▴ 30
there is only one value of methylation and expression per gene. I did perform corr(gene_corr$methylation_values, gene_corr$expression_value…
Answer: Enhanced Volcano-Cut off
by
marco.barr
▴ 90
from the documentation it seems that it reports limits for the value of log2 fold-change in an absolute sense. FCcutoff: Cut-off for…
Answer: Importing a fastq file
by
oumo
• 0
The fastq file is in my local disk, and I want to upload it to Ubuntu
Comment: Conda severely broken after attempting mamba install
by
andres.firrincieli
3.6k
I have been there... I just reinstalled conda.
Comment: Importing a fastq file
by
marco.barr
▴ 90
That's right.. With `cp` command from terminal cp /mnt/c/path/to/your/fastq/file.fastq /path/in/wsl/
Comment: Copy number Variation analysis using conumee
by
zylcc2
• 0
if your seqnames include "chrX" or "chrY", should add "chrXY=TRUE". like this : anno_combine <- CNV.create_anno(bin_minprobes = 15, bin_min…
Comment: Importing a fastq file
by
ATpoint
82k
Windows is mounted as `/mnt/c/...` in WSL (at least in WSL2).
Answer: Importing a fastq file
by
marco.barr
▴ 90
Can you explain better what you mean? If I understand correctly, your fastq file must be in the Ubuntu home folder of your wsl to be able t…
Answer: Seurat CellCycleScoring – confused about the proper order of operations when usi
by
Li
• 0
I‘m not an expert in sctransform or cellcyclescoring. But I think it's because sctransform creates a new assay named "SCT", which is differ…
Comment: How can I analyze normalized expression data?
by
mnx0723
• 0
thank you for comment
Comment: Pruning Phylogenetic Trees and Bootstrap Values
by
Zeng Hao
▴ 40
Dear Klaus, Thank you for the reply. If I could clarify with an example: With this tree, B0----------------- A -| B1----------…
Answer: Contig assembly task, errors
by
Philipp Bayer
8.4k
Feels a bit strange for an aptitude test, feels more like homework. 1) seems OK to me, just chuck them into CAP3 and see what falls out.…
Comment: Help with Biopython for Beginner
by
Pierre Lindenbaum
161k
Please do not paste screenshots of plain text content, it is counterproductive. You can copy paste the content directly here (using the cod…
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