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682 results • Page
5 of 14
Sort: Rank
Rank
Views
Votes
Replies
1
vote
4
replies
311
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 15 hours 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
233
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 6 days ago by
Zhenyu Zhang
★ 1.2k • written 10 days ago by
elisheva
▴ 120
0
votes
0
replies
110
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 10 days ago by
Ram
43k • written 10 days ago by
mathavanbioinfo
▴ 90
1
vote
1
reply
289
views
Seurat V5 integration
Seurat
integration
updated 10 days ago by
Ram
43k • written 13 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 10 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 10 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 10 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
177
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 10 days ago by
GenoMax
142k • written 10 days ago by
madders73
• 0
4
votes
2
replies
276
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 10 days ago by
chloek88
• 0 • written 5.6 years ago by
Philipp Bayer
8.5k
5
votes
7
replies
500
views
RNA seq analysis
DESeq
RNA-seq
3 days ago by
Jacek
▴ 20
11
votes
3
replies
345
views
TFs and Gene databases
Transcription-factor
Target
Regulatory-Networks
updated 10 days ago by
b.contreras.moreira
▴ 200 • written 11 days ago by
ijarne
• 0
0
votes
0
replies
147
views
Chance for trained without experience
bio
updated 10 days ago by
ATpoint
82k • written 10 days ago by
shehab
• 0
1
vote
2
replies
228
views
How do I change the title font size in ViolinPlot (Seurat)
Seurat
Violin-Plot
ggplot2
patchwork
10 days ago by
Assa Yeroslaviz
★ 1.8k
0
votes
0
replies
128
views
Xenium multi sample data
batch
annotation
cell
Xenium
effect
10 days ago by
Omics data mining
▴ 260
0
votes
2
replies
190
views
Phasing a mixture of two individuals' DNA with long reads
long-reads
phasing
10 days ago by
njornet
▴ 20
0
votes
2
replies
219
views
Exploring Diet Effects in Single-Cell RNA Sequencing
batch_effect
scRNA
seurat
integration
updated 10 days ago by
Adam
▴ 30 • written 10 days ago by
Darya
• 0
0
votes
5
replies
286
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 10 days ago by
Joe
21k • written 10 days ago by
Lemonhope
• 0
0
votes
0
replies
182
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
9 days ago by
Winter
• 0
0
votes
5
replies
335
views
A question about reference genome for creating the consensus sequence
fasta
fa
cram
genome
10 days ago by
me
• 0
2
votes
1
reply
151
views
java out of memory error through beagle for imutation
beagle
java.out.of.memory
imputation
10 days ago by
analyst
▴ 50
0
votes
0
replies
92
views
Blog:
Introduction to The Complete Sequence of a Human Genome
biotech
10 days ago by
usa.cd.genomics
• 0
0
votes
0
replies
101
views
Blog:
Overview of Nanopore Sequencing
biotech
10 days ago by
usa.cd.genomics
• 0
0
votes
0
replies
108
views
meffil.snp.concordance
meffil
methylation
snp_concordance
11 days ago by
kyj222637
• 0
0
votes
1
reply
165
views
PseudobulkExpression.Seurat error
Seurat
pseudo-bulk
updated 10 days ago by
Bastien Hervé
5.3k • written 11 days ago by
sooni
▴ 20
1
vote
5
replies
458
views
HCL database download
HCL
updated 11 days ago by
Ram
43k • written 15 days ago by
sooni
▴ 20
0
votes
1
reply
261
views
barcode of TCR-sequencing
barcode
updated 11 days ago by
mizraelson
▴ 60 • written 18 days ago by
yueli7
▴ 250
1
vote
3
replies
264
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
102
views
monocle 3-- Could not get node in small cluster
monocle3
11 days ago by
synat.keam
▴ 100
0
votes
2
replies
221
views
Correlating Bulk Differential Expression with quantitative
Differential-Expression
DESeq2
10 days ago by
Nicholas
• 0
1
vote
4
replies
397
views
Understanding STAR output (Aligned.out.sam file)
STAR
paired-end
read
11 days ago by
heelpPlease
• 0
0
votes
9
replies
616
views
Applying the metacell2 algorithm using python
python
single-cell
scanpy
metacell2
updated 3 days ago by
Wayne
★ 2.0k • written 12 days ago by
JACKY
▴ 140
0
votes
0
replies
120
views
News:
Online course. -Time series analysis and Forecasting in R
Time-Series
Forecasting
R
Stastics
11 days ago by
carlopecoraro2
★ 2.5k
0
votes
2
replies
491
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
267
views
ERROR: Duplicate entry "..." in sam header; samtools view: failed to add PG line to the header
sort.
SAMtools.
BAM.
SAM.
updated 11 days ago by
GenoMax
142k • written 11 days ago by
Sony
▴ 10
5
votes
5
replies
323
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
236
views
Differentail gene expression results
differential
expression
gene
rna-seq
Deseq2
updated 10 days ago by
swbarnes2
14k • written 11 days ago by
ahmad.sajad4541
• 0
1
vote
9
replies
406
views
UMI-Tools knee-method has great influence on the results of white list
single-cell
whitelist
UMI
RNA
UMI-Tools
updated 8 days ago by
i.sudbery
19k • written 11 days ago by
Assa Yeroslaviz
★ 1.8k
1
vote
1
reply
176
views
student
epitranscriptomics
updated 11 days ago by
ATpoint
82k • written 11 days ago by
useriwa
• 0
0
votes
3
replies
194
views
trying to count a pattern in my fastq file using bbduk
java
bbduk
bbmap
fastq
updated 11 days ago by
GenoMax
142k • written 11 days ago by
Assa Yeroslaviz
★ 1.8k
7
votes
1
reply
197
views
Tutorial:
removeBatchEffect explained using base R linear models
limma
effects
batch
removebatcheffects
updated 11 days ago by
dariober
14k • written 11 days ago by
nhaus
▴ 360
2
votes
2
replies
193
views
Is therer any suggestions on mapping rate of WGBS data?
mapping
read
alignment
WGBS
11 days ago by
Zeng Jingyu
▴ 60
1
vote
2
replies
279
views
News:
We created a Bioinformatics Competition for Spatial Transcriptomics: MICOS-EU
cell-clustering
Spatial-transcriptomics
updated 11 days ago by
Weiwen
• 0 • written 12 days ago by
MICOS
▴ 10
0
votes
4
replies
310
views
Correlation Analysis
statistics
methylation
NGS
expression
7 days ago by
Researcher
▴ 30
1
vote
2
replies
194
views
Repeated testing/data mining in RNA Seq
repeated
RNA-Seq
mining
testing
data
11 days ago by
robert.flynn.21
• 0
1
vote
1
reply
235
views
Tool:
Converting Nebula Genomics Data to 23andMe Format
23andMe
Nebula
updated 11 days ago by
Michael
54k • written 12 days ago by
Guillermo
• 0
1
vote
5
replies
380
views
Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, Complexity, and Use Cases
fmindex
bwt
updated 10 days ago by
Michael
54k • written 11 days ago by
qwertyuiop26
• 0
0
votes
1
reply
184
views
What is the proper way to identify the cell types of scRNAseq cluster?
scRNAseq
updated 11 days ago by
ATpoint
82k • written 12 days ago by
MAPK2
▴ 40
682 results • Page
5 of 14
Recent Votes
A: How is the design in DESeq2 work?
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
Answer: RNAseq coverage vs depth for transcript isoform expression?
constructing pangenome through psvcp
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
Answer: RNAseq coverage vs depth for transcript isoform expression?
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Recent Awards •
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Popular Question
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synat.keam
▴ 100
Scholar
to
jv
★ 1.8k
Popular Question
to
syedahamdani94
• 0
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mohammadhassanj
▴ 260
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dsull
★ 6.0k
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Ezequiel
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Recent Replies
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…
Comment: calculating genomic coverage/ base overlap in R
by
1769mkc
★ 1.2k
you can `dput(head(df)` for the both the data frame so that other can test for possible solutions
Comment: Broad and Narrow peaks
by
ATpoint
82k
What is your question? It's unclear.
Comment: Help with Biopython for Beginner
by
Joe
21k
One question before offering more solutions: are you trying to learn Python with this as an example problem, or are you trying to find the …
Answer: RNAseq coverage vs depth for transcript isoform expression?
by
Gordon Smyth
★ 7.2k
See the exploration of isoform estimation precision vs read length and sequencing depth in our paper: https://doi.org/10.1093/nar/gkad1167.…
Comment: How to handle duplicated genes in TCGA data?
by
txema.heredia
▴ 130
Why does the tool require gene symbols and not ensembl ids? Is it retrieving information from somewhere else? If so, your best bet is to fi…
Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Thank you so much for your response . Really appreciate it. I will try the way you mentioned and will get back if I have any query
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
i have the same error, i used high performance computer, here is my code to set memory. srun --nodes=1 --ntasks=1 --cpus-per-task=24 -…
Comment: Overlapping Ranges within Granges object
by
Alex Reynolds
35k
Yes, `bedmap` will perform operations on one or two BED files.
Comment: B allele frequency (BAF)
by
aidangcruickshank
▴ 10
Apologies for resurrecting this post, but any idea what that functions "regions" paramater takes? Would it be a GRanges object? The documen…
Comment: How to handle duplicated genes in TCGA data?
by
Ngrin
• 0
Thanks @txema.heredia.The tool I am going to use only accepts gene symbols. This is the reason. So I cannot use ENS IDs.
Answer: Design for complex RNA-Seq experiment using Deseq2
by
swbarnes2
14k
This is a rather small experiment, I don't know that you can establish a meaningful baseline for each patient with a single pre sample, and…
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