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
671 results • Page
5 of 14
Sort: Rank
Rank
Views
Votes
Replies
1
vote
1
reply
458
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 10 days ago by
Jaïr
• 0 • written 5 months ago by
NorbertK
▴ 10
4
votes
3
replies
2.9k
views
How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when run SamToFastq
samtofasq
picard
validatesamfile
updated 10 days ago by
Pierre Lindenbaum
161k • written 10 days ago by
Lila M
★ 1.2k
2
votes
3
replies
237
views
Nextflow: how to get the process work dir, within the process
nextflow
updated 10 days ago by
Pierre Lindenbaum
161k • written 10 days ago by
ScottDansk
▴ 10
1
vote
0
replies
143
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
10 days ago by
Shae
▴ 10
0
votes
1
reply
196
views
Enhanced Volcano-Cut off
foldchange
enhancedvolcano
updated 10 days ago by
marco.barr
▴ 130 • written 10 days ago by
odi
▴ 10
0
votes
6
replies
2.1k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 10 days ago by
GenoMax
142k • written 3.2 years ago by
gs000095
▴ 10
1
vote
1
reply
163
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 10 days ago by
andres.firrincieli
3.6k • written 10 days ago by
kacollier
▴ 30
1
vote
2
replies
1.7k
views
Seurat CellCycleScoring – confused about the proper order of operations when using SCTransform
CellCycleScoring
SCTransform
Seurat
updated 10 days ago by
Li
• 0 • written 2.3 years ago by
GPM
▴ 10
0
votes
0
replies
119
views
Summary Statistics SNPs not found in Target data
SNP
plink
PRS
updated 10 days ago by
Ram
43k • written 10 days ago by
curious_butterfly
• 0
1
vote
4
replies
346
views
Contig assembly task, errors
dna
genetics
contig
assembly
updated 5 days ago by
Ram
43k • written 10 days ago by
samRayne
• 0
1
vote
4
replies
322
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 1 day ago by
Joe
21k • written 10 days ago by
cput
• 0
0
votes
0
replies
122
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
10 days ago by
asalimih
▴ 60
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 10 days ago by
Emanoelle
• 0 • written 5.8 years ago by
Elizabeth
▴ 30
0
votes
2
replies
234
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 6 days ago by
Zhenyu Zhang
★ 1.2k • written 11 days ago by
elisheva
▴ 120
0
votes
0
replies
111
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 10 days ago by
Ram
43k • written 11 days ago by
mathavanbioinfo
▴ 90
1
vote
1
reply
292
views
Seurat V5 integration
Seurat
integration
updated 10 days ago by
Ram
43k • written 14 days ago by
starswillfade
▴ 10
0
votes
2
replies
229
views
Error in plotting PCA plot in seurat
PCA
single-cell
seurat
scRNA
RNA
updated 10 days ago by
Ram
43k • written 11 days ago by
Sumeet
• 0
0
votes
0
replies
127
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 10 days ago by
Ram
43k • written 11 days ago by
carlopecoraro2
★ 2.5k
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 11 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
180
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 11 days ago by
GenoMax
142k • written 11 days ago by
madders73
• 0
4
votes
2
replies
277
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
10 days ago by
mnx0723
• 0
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 11 days ago by
chloek88
• 0 • written 5.6 years ago by
Philipp Bayer
8.5k
5
votes
7
replies
503
views
RNA seq analysis
DESeq
RNA-seq
4 days ago by
Jacek
▴ 20
11
votes
3
replies
356
views
TFs and Gene databases
Transcription-factor
Target
Regulatory-Networks
updated 11 days ago by
b.contreras.moreira
▴ 200 • written 12 days ago by
ijarne
• 0
0
votes
0
replies
148
views
Chance for trained without experience
bio
updated 11 days ago by
ATpoint
82k • written 11 days ago by
shehab
• 0
1
vote
2
replies
235
views
How do I change the title font size in ViolinPlot (Seurat)
Seurat
Violin-Plot
ggplot2
patchwork
11 days ago by
Assa Yeroslaviz
★ 1.8k
0
votes
0
replies
129
views
Xenium multi sample data
batch
annotation
cell
Xenium
effect
11 days ago by
Omics data mining
▴ 260
0
votes
2
replies
196
views
Phasing a mixture of two individuals' DNA with long reads
long-reads
phasing
11 days ago by
njornet
▴ 20
0
votes
2
replies
223
views
Exploring Diet Effects in Single-Cell RNA Sequencing
batch_effect
scRNA
seurat
integration
updated 11 days ago by
Adam
▴ 30 • written 11 days ago by
Darya
• 0
0
votes
5
replies
293
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 11 days ago by
Joe
21k • written 11 days ago by
Lemonhope
• 0
0
votes
0
replies
184
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
10 days ago by
Winter
• 0
0
votes
5
replies
344
views
A question about reference genome for creating the consensus sequence
fasta
fa
cram
genome
11 days ago by
me
• 0
2
votes
1
reply
156
views
java out of memory error through beagle for imutation
beagle
java.out.of.memory
imputation
11 days ago by
analyst
▴ 50
0
votes
0
replies
92
views
Blog:
Introduction to The Complete Sequence of a Human Genome
biotech
11 days ago by
usa.cd.genomics
• 0
0
votes
0
replies
102
views
Blog:
Overview of Nanopore Sequencing
biotech
11 days ago by
usa.cd.genomics
• 0
0
votes
0
replies
110
views
meffil.snp.concordance
meffil
methylation
snp_concordance
11 days ago by
kyj222637
• 0
0
votes
1
reply
167
views
PseudobulkExpression.Seurat error
Seurat
pseudo-bulk
updated 11 days ago by
Bastien Hervé
5.3k • written 11 days ago by
sooni
▴ 20
1
vote
5
replies
474
views
HCL database download
HCL
updated 11 days ago by
Ram
43k • written 15 days ago by
sooni
▴ 20
0
votes
1
reply
262
views
barcode of TCR-sequencing
barcode
updated 11 days ago by
mizraelson
▴ 60 • written 19 days ago by
yueli7
▴ 250
1
vote
3
replies
269
views
STAR aligner error
RNA-seq
STAR
slurm
updated 10 days ago by
Ram
43k • written 11 days ago by
M.
▴ 30
0
votes
0
replies
103
views
monocle 3-- Could not get node in small cluster
monocle3
11 days ago by
synat.keam
▴ 100
0
votes
2
replies
226
views
Correlating Bulk Differential Expression with quantitative
Differential-Expression
DESeq2
11 days ago by
Nicholas
• 0
1
vote
4
replies
416
views
Understanding STAR output (Aligned.out.sam file)
STAR
paired-end
read
12 days ago by
heelpPlease
• 0
0
votes
9
replies
646
views
Applying the metacell2 algorithm using python
python
single-cell
scanpy
metacell2
updated 4 days ago by
Wayne
★ 2.0k • written 13 days ago by
JACKY
▴ 140
0
votes
0
replies
124
views
News:
Online course. -Time series analysis and Forecasting in R
Time-Series
Forecasting
R
Stastics
12 days ago by
carlopecoraro2
★ 2.5k
0
votes
2
replies
500
views
HLA-HD tool for genomic imputation
genomics
imputation
bash
updated 11 days ago by
Javier
• 0 • written 3 months ago by
fra.r.silvestro
▴ 10
0
votes
1
reply
274
views
ERROR: Duplicate entry "..." in sam header; samtools view: failed to add PG line to the header
sort.
SAMtools.
BAM.
SAM.
updated 12 days ago by
GenoMax
142k • written 12 days ago by
Sony
▴ 10
5
votes
5
replies
345
views
Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent
EGSEA
11 days ago by
Chris
▴ 280
0
votes
2
replies
242
views
Differentail gene expression results
differential
expression
gene
rna-seq
Deseq2
updated 11 days ago by
swbarnes2
14k • written 12 days ago by
ahmad.sajad4541
• 0
1
vote
9
replies
432
views
UMI-Tools knee-method has great influence on the results of white list
single-cell
whitelist
UMI
RNA
UMI-Tools
updated 9 days ago by
i.sudbery
19k • written 12 days ago by
Assa Yeroslaviz
★ 1.8k
671 results • Page
5 of 14
Recent Votes
Comment: Duplicated sequence samtools
Answer: Duplicated sequence samtools
Answer: Duplicated sequence samtools
Answer: How to add Ensembl id to cluster.markers in Seurat
Sequence alignment on split read event such as inversion, duplication and complex nested events.
plotting trees in R: node labels from nexus tree files
Interpreting the Jackstraw plot of Seurat
Recent Locations •
All
United States,
2 minutes ago
Istanbul, Turkey,
5 minutes ago
Belgium,
8 minutes ago
Belgium,
10 minutes ago
United States,
13 minutes ago
United Kingdom,
14 minutes ago
United States,
15 minutes ago
Recent Awards •
All
Popular Question
to
carlopecoraro2
★ 2.5k
Popular Question
to
scideas
▴ 30
Popular Question
to
Muhammad
• 0
Popular Question
to
synat.keam
▴ 100
Scholar
to
jv
★ 1.8k
Popular Question
to
syedahamdani94
• 0
Popular Question
to
mohammadhassanj
▴ 260
Recent Replies
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
Pierre Lindenbaum
161k
> Cannot read non-existent file: file:///local/home/User/VCF_Filtering/biostar.code your file doesn't exist, is at the wrong place etc.
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
ajbarrett98
• 0
Hi Pierre, I am attempting to run this code and am running into this error: (jvar) $ jvarkit vcffilterjdk -f biostar.code Dart_VCF2_Or…
Comment: scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
by
ATpoint
82k
I cannot give a precise answer, as ML is not my field, but generally, why don't you apply the method to pseudobulks of the exact single-cel…
Answer: geom_bar issue in ggplot2 with xlim()
by
ATpoint
82k
https://stackoverflow.com/questions/10365167/geom-bar-bars-not-displaying-when-specifying-ylim
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴ 50
Yes. We are sequencing 45 different samples with illumina. 12 of these are also going to be sequenced with Nanopore (for hybrid assembly). …
Comment: HGVS Nomenclature of Multiple Indels found in Cis
by
LauferVA
4.2k
how has this code progressed? is it publically available? would you want to work together?
Comment: Design for complex RNA-Seq experiment using Deseq2
by
Ezequiel
• 0
I completely agree with most points. The PCA shows that the biggest driver of difference is the patients themselves, with PRE and POST time…
Comment: Add stats to the plot
by
marco.barr
▴ 130
Hi, you can add statistical annotations using `ggpubr` function `stat_pvalue_manual `. You need to make sure you calculate the p-values fir…
Answer: seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from
by
ATpoint
82k
Use everything before the whitespace in list.txt, for example `A00869:294:HCW57DSXY:2:1101:3929:1000` and not `A00869:294:HCW57DSXY:2:1101:…
Answer: CellRanger output more cells than specified using --force-cells? Why?
by
scideas
▴ 30
I actually had this same issue with CellRanger v7- turns out that since you have 2 species in your mapping reference, CellRanger is forcing…
Answer: Checking chromosome builds for genotyping data
by
Muhammad
• 0
Assume you have genotype data in Plink format. (G.bed, G.bim, G.fam) Download some reference panel data in Plink format (R.bed, R.bim, R.f…
Comment: Error in CIBERSORTx ($ operator is invalid for atomic vectors)
by
nguyenn6
• 0
did you ever figure it out? i'm having the same issue.
Comment: Traveler with Infernal mapping failed
by
anton.i.petrov
• 0
Hi Larissa! I am the lead developer of R2DT and I've just noticed this question. Could you please email help@r2dt.bio with your input seque…
Comment: constructing pangenome through psvcp
by
analyst
▴ 50
Fixed the issue by updating nucmer version.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
GenoMax
142k
Can you create a small test database (`makeblastdb`) from your query file and try to run the search against the same file and see if that w…
Traffic: 1262 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