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980 results • Page
1 of 20
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Votes
Replies
0
votes
0
replies
3
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
just now by
Zeng Hao
▴ 40
0
votes
1
reply
36
views
Contig assembly task, errors
genetics
contig
assembly
dna
bioinformatics
updated 30 minutes ago by
GenoMax
142k • written 2 hours ago by
rackbersingh
• 0
0
votes
1
reply
52
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 2 hours ago by
Pierre Lindenbaum
161k • written 3 hours ago by
Matthew
• 0
0
votes
0
replies
29
views
Enhanced Volcano-Cut off
enhanced
foldchange
volcano
3 hours ago by
odi
▴ 10
0
votes
1
reply
43
views
Help with Biopython for Beginner
Python
FASTA
Biopython
ORF
Beginner
updated 2 hours ago by
Pierre Lindenbaum
161k • written 3 hours ago by
cput
• 0
0
votes
0
replies
44
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
4 hours ago by
asalimih
▴ 60
0
votes
4
replies
271
views
Filtering Multi-sample VCF file for all except one Genotype
variant
SNP
VCF
5 hours ago by
schmince
• 0
0
votes
1
reply
87
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
4 hours ago by
Prawesh
• 0
0
votes
9
replies
1.4k
views
kinannote software installation problems
kinannote
updated 6 hours ago by
Emanoelle
• 0 • written 5.7 years ago by
Elizabeth
▴ 30
0
votes
1
reply
96
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 6 hours ago by
marco.barr
▴ 90 • written 9 hours ago by
elisheva
▴ 120
0
votes
0
replies
40
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 5 hours ago by
Ram
43k • written 8 hours ago by
mathavanbioinfo
▴ 90
0
votes
1
reply
184
views
Seurat V5 integration
Seurat
integration
updated 5 hours ago by
Ram
43k • written 3 days ago by
starswillfade
▴ 10
0
votes
2
replies
145
views
Error in plotting PCA plot in seurat
PCA
single-cell
seurat
scRNA
RNA
updated 5 hours ago by
Ram
43k • written 18 hours ago by
Sumeet
• 0
0
votes
0
replies
56
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 5 hours ago by
Ram
43k • written 9 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 10 hours ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
96
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 10 hours ago by
GenoMax
142k • written 10 hours ago by
madders73
• 0
2
votes
1
reply
153
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
updated 11 hours ago by
Bastien Hervé
5.3k • written 15 hours ago by
mnx0723
• 0
3
votes
4
replies
3.9k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 13 hours ago by
chloek88
• 0 • written 5.5 years ago by
Philipp Bayer
8.4k
0
votes
3
replies
183
views
RNA seq analysis
DESeq
RNA-seq
updated 6 hours ago by
Ram
43k • written 14 hours ago by
prifa
• 0
10
votes
3
replies
244
views
TFs and Gene databases
Transcription-factor
Target
Regulatory-Networks
updated 15 hours ago by
b.contreras.moreira
▴ 180 • written 1 day ago by
ijarne
• 0
0
votes
0
replies
93
views
Chance for trained without experience
bio
updated 14 hours ago by
ATpoint
82k • written 15 hours ago by
shehab
• 0
1
vote
2
replies
132
views
How do I change the title font size in ViolinPlot (Seurat)
Seurat
Violin-Plot
ggplot2
patchwork
15 hours ago by
Assa Yeroslaviz
★ 1.8k
0
votes
0
replies
68
views
Xenium multi sample data
batch
annotation
cell
Xenium
effect
16 hours ago by
Omics data mining
▴ 260
0
votes
2
replies
124
views
Phasing a mixture of two individuals' DNA with long reads
long-reads
phasing
14 hours ago by
njornet
▴ 20
0
votes
2
replies
145
views
Exploring Diet Effects in Single-Cell RNA Sequencing
batch_effect
scRNA
seurat
integration
updated 9 hours ago by
Adam
▴ 30 • written 17 hours ago by
Darya
• 0
0
votes
5
replies
187
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 13 hours ago by
Joe
21k • written 17 hours ago by
Lemonhope
• 0
0
votes
0
replies
88
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
17 hours ago by
Winter
• 0
0
votes
5
replies
232
views
A question about reference genome for creating the consensus sequence
fasta
fa
cram
genome
11 hours ago by
me
• 0
2
votes
11
replies
2.6k
views
6 follow
CNVKIT - unable to produce scatter and diagram pdfs
cnvkit
updated 18 hours ago by
DGTool
• 0 • written 4.8 years ago by
ww22runner
▴ 60
2
votes
1
reply
90
views
java out of memory error through beagle for imutation
beagle
java.out.of.memory
imputation
19 hours ago by
analyst
▴ 50
0
votes
0
replies
61
views
Generating .bed file and .map file for polyploid vcf file through plink
bed
polyploid
map
plink
20 hours ago by
analyst
▴ 50
0
votes
0
replies
58
views
Blog:
Introduction to The Complete Sequence of a Human Genome
biotech
20 hours ago by
usa.cd.genomics
• 0
0
votes
0
replies
62
views
Blog:
Overview of Nanopore Sequencing
biotech
20 hours ago by
usa.cd.genomics
• 0
0
votes
0
replies
72
views
meffil.snp.concordance
meffil
methylation
snp_concordance
1 day ago by
kyj222637
• 0
0
votes
1
reply
111
views
PseudobulkExpression.Seurat error
Seurat
pseudo-bulk
updated 11 hours ago by
Bastien Hervé
5.3k • written 1 day ago by
sooni
▴ 20
1
vote
5
replies
377
views
HCL database download
HCL
updated 1 day ago by
Ram
43k • written 4 days ago by
sooni
▴ 20
0
votes
1
reply
226
views
barcode of TCR-sequencing
barcode
updated 1 day ago by
mizraelson
▴ 60 • written 8 days ago by
yueli7
▴ 250
0
votes
3
replies
180
views
STAR aligner error
RNA-seq
STAR
slurm
updated 6 hours ago by
Ram
43k • written 1 day ago by
M.
▴ 30
0
votes
0
replies
77
views
monocle 3-- Could not get node in small cluster
monocle3
1 day ago by
synat.keam
▴ 100
0
votes
2
replies
169
views
Correlating Bulk Differential Expression with quantitative
Differential-Expression
DESeq2
10 hours ago by
Nicholas
• 0
1
vote
4
replies
330
views
Understanding STAR output (Aligned.out.sam file)
STAR
paired-end
read
1 day ago by
heelpPlease
• 0
0
votes
7
replies
417
views
Applying the metacell2 algorithm using python
python
single-cell
scanpy
metacell2
updated 9 hours ago by
Wayne
★ 2.0k • written 2 days ago by
JACKY
▴ 140
0
votes
0
replies
97
views
News:
Online course. -Time series analysis and Forecasting in R
Time-Series
Forecasting
R
Stastics
1 day ago by
carlopecoraro2
★ 2.5k
0
votes
2
replies
446
views
HLA-HD tool for genomic imputation
genomics
imputation
bash
updated 1 day ago by
Javier
• 0 • written 3 months ago by
fra.r.silvestro
▴ 10
0
votes
1
reply
165
views
ERROR: Duplicate entry "..." in sam header; samtools view: failed to add PG line to the header
sort.
SAMtools.
BAM.
SAM.
updated 1 day ago by
GenoMax
142k • written 1 day ago by
Sony
▴ 10
5
votes
5
replies
253
views
Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent
EGSEA
22 hours ago by
Chris
▴ 280
0
votes
2
replies
168
views
Differentail gene expression results
differential
expression
gene
rna-seq
Deseq2
updated 9 hours ago by
swbarnes2
14k • written 1 day ago by
ahmad.sajad4541
• 0
1
vote
5
replies
199
views
UMI-Tools knee-method has great influence on the results of white list
single-cell
whitelist
UMI
RNA
UMI-Tools
updated 1 day ago by
i.sudbery
19k • written 1 day ago by
Assa Yeroslaviz
★ 1.8k
1
vote
1
reply
151
views
student
epitranscriptomics
updated 1 day ago by
ATpoint
82k • written 1 day ago by
useriwa
• 0
0
votes
0
replies
102
views
Imputation of missing genotypes
panel
beagle
imputation
1 day ago by
analyst
▴ 50
980 results • Page
1 of 20
Recent Votes
Answer: Pruning Phylogenetic Trees and Bootstrap Values
Difference between Pysam Pileup and Fetch
Answer: Where can I download some example BAM files?
Comment: Where can I download some example BAM files?
Where can I download some example BAM files?
Verify if all the components of a pathway are present in a genomes
removeBatchEffect explained using base R linear models
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Popular Question
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rackbersingh
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Centurion
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mathavanbioinfo
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nhaus
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Recent Replies
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 c…
Answer: bcftools - reducing to "sites-only"?
by
Pierre Lindenbaum
161k
bcftools view -G in.vcf.gz <!-- Diabetic foot ulceration (DFU) is a devastating complication of diabetes whose pathogenesis rema…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
schmince
• 0
I probably got some of the vocabulary wrong. I thought that "Dom HOR2932 HOR3036 HOR3726 KWSBambina Rec S42IL_124" were representing my ge…
Comment: featureCounts output assigned value higher than and HISAT2 mapping.
by
Ram
43k
It's featureCount**s**, not featureCount. I've edited your post and fixed all mentions of featureCounts.
Comment: kinannote software installation problems
by
Emanoelle
• 0
Hey, I know it's been 5 years but I have the same issue. When I run the test the software is unable to perform and always deliver the follo…
Comment: STAR aligner error
by
Ram
43k
If they can't help you, we probably can't do much either. But we can optimize your STAR command. BAM SortedByCoordinate is the worst settin…
Answer: Obtaining Infinium Methylation450K manifest for hg38
by
marco.barr
▴ 90
Hi, you can check it from github here: [https://zwdzwd.github.io/InfiniumAnnotation][1]. I don't know if this is what you are looking fo…
Comment: RNA seq analysis
by
ATpoint
82k
It makes absolutely no sense to conduct such an analysis. I strongly discourage you to even start with it. Results will be utterly nonsense…
Comment: Differentail gene expression results
by
swbarnes2
14k
Cross-posted: https://support.bioconductor.org/p/9158194/
Answer: Seurat V5 integration
by
Bastien Hervé
5.3k
It will depend on your context and question. I guess you will want to compare gene expression between your conditions within cell types …
Answer: Error in plotting PCA plot in seurat
by
Adam
▴ 30
You get this error when you try to compare two data frames that have different dimensions. Try using the traceback() command to figure out …
Comment: Applying the metacell2 algorithm using python
by
Wayne
★ 2.0k
Sorry, this was supposed to be a comment appended to the chain above. I didn't mean to post as an answer.
Comment: Exploring Diet Effects in Single-Cell RNA Sequencing
by
Adam
▴ 30
> when I looked at the expression of aging marker genes, I noticed that diets sequenced in the same batch appeared more similar. How simil…
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