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321 results • Page
5 of 7
Sort: Rank
Rank
Views
Votes
Replies
3
votes
3
replies
296
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 6 days ago by
Ram
43k • written 20 days ago by
Adyasha
• 0
0
votes
0
replies
126
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
20 days ago by
fanglujing
▴ 60
0
votes
0
replies
151
views
Are some metagenomes too complex for MAGs?
metagenomics
metagenome
MAGs
assembly
20 days ago by
Jacob
• 0
0
votes
1
reply
205
views
Differential Accessibility
DiffBind
updated 20 days ago by
Ram
43k • written 20 days ago by
Shloka
• 0
0
votes
3
replies
324
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 19 days ago by
GenoMax
142k • written 20 days ago by
kim
• 0
3
votes
7
replies
424
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
20 days ago by
salias
• 0
0
votes
0
replies
143
views
Using limma in methylation EM-seq?
EM-seq
methylation
20 days ago by
Lluís R.
★ 1.2k
0
votes
0
replies
139
views
Synteny analysis
bacterial
synteny
genome
updated 20 days ago by
GenoMax
142k • written 20 days ago by
Namil
• 0
0
votes
4
replies
315
views
Genbank File Format
gbkformat
20 days ago by
alenew.am
• 0
0
votes
0
replies
276
views
Assist me in determining whether the analysis process using the limma package has been executed correctly
limma
ArrayExpress
DifferentialExpression
GEOquery
20 days ago by
SSSJec
• 0
0
votes
3
replies
265
views
Software to separate reads from different individuals
software
development
nanopore
updated 20 days ago by
GenoMax
142k • written 20 days ago by
njornet
▴ 20
0
votes
2
replies
376
views
How to update R on ubuntu
installation
update
R
apt-get
20 days ago by
Bosberg
▴ 50
0
votes
0
replies
130
views
LEfSe
LEfSe
20 days ago by
benkosta
• 0
0
votes
0
replies
107
views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
DEXSeq
DEXSeqDataSet
SGSeq
20 days ago by
Sara
▴ 30
0
votes
2
replies
205
views
Longitudinal analysis of subpopulations: which approach is better?
differential-expression
DEG
model
21 days ago by
Lluís R.
★ 1.2k
0
votes
0
replies
127
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 6 days ago by
Ram
43k • written 21 days ago by
atharvakarkare14
▴ 40
0
votes
2
replies
250
views
What should I consider as FASTA for dataset?
PDB
FASTA
20 days ago by
Nafi
• 0
0
votes
0
replies
612
views
Differential accessibility using DiffBinf
diffbind
21 days ago by
Shloka
• 0
0
votes
0
replies
119
views
vg call vs vg surject
vg
variation
graphs
updated 20 days ago by
GenoMax
142k • written 21 days ago by
aliraza3119
• 0
0
votes
1
reply
247
views
Finding batch and outlayers
Pca
updated 21 days ago by
christopher medway
▴ 460 • written 21 days ago by
Tigran
• 0
2
votes
2
replies
249
views
PDB related issue
rcsb
pdb
updated 21 days ago by
noodle
▴ 580 • written 21 days ago by
Nafi
• 0
0
votes
9
replies
2.6k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 21 days ago by
Ram
43k • written 9 months ago by
Gio
• 0
1
vote
2
replies
288
views
Downloading full alignments from Pfam
pfam
14 days ago by
bef1
• 0
0
votes
0
replies
142
views
adjusting for confounders in LMER in R
confounders
LMER
R
updated 20 days ago by
dariober
14k • written 22 days ago by
rene.j.erhardt
▴ 20
1
vote
3
replies
385
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 21 days ago by
ATpoint
82k • written 22 days ago by
Francesco
▴ 10
0
votes
0
replies
159
views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
STAR
22 days ago by
tnminh89
▴ 10
0
votes
0
replies
160
views
Filter low express genes in microarray data
microarray
22 days ago by
Chris
▴ 280
0
votes
0
replies
588
views
Correlation between cell type prediction scores and individual gene expression in spatial transcriptomic datasets
single-cell
Spatial-Transcriptomics
23 days ago by
biocellbio
• 0
0
votes
0
replies
226
views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes
vcf
phasing
24 days ago by
HarperReed
• 0
1
vote
0
replies
176
views
Simulation of label-free bottom-up proteomics expression dataset
label-free
bottom-up
lc-ms
proteomics
24 days ago by
KABILAN
▴ 70
0
votes
0
replies
192
views
Running Phylogenetic Analysis With NCBI Genome
population-genetics
phylogenetic
updated 23 days ago by
Ram
43k • written 24 days ago by
SineWave
• 0
0
votes
0
replies
192
views
RNA-seq: full length gene
RNA-seq
updated 23 days ago by
Ram
43k • written 24 days ago by
Nargis
• 0
0
votes
0
replies
173
views
Haplotype Phased Assembly Contigs to Chromosome Annotations
Assembly
phased
Haplotype
Annotation
24 days ago by
turcoa1
• 0
0
votes
0
replies
186
views
Designing single-stable RNA molecules
structure
RNA
24 days ago by
Edna
• 0
0
votes
0
replies
198
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
24 days ago by
simplitia
▴ 130
1
vote
1
reply
271
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 24 days ago by
ATpoint
82k • written 24 days ago by
AaronJaime
• 0
0
votes
0
replies
183
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
deeptools
correlation
6 days ago by
Emily
▴ 20
1
vote
0
replies
197
views
How to calculate reliable Ka/Ks or dN/dS ratio for genes of interest from VCF file
dnds
kaks
VCF
24 days ago by
rohitsatyam102
▴ 870
0
votes
0
replies
174
views
how to read graph_test output of monocle 3
monocle3
24 days ago by
synat.keam
▴ 100
0
votes
1
reply
538
views
GAPIT p-value significance threshold
GAPIT
p-value
GWAS
updated 24 days ago by
ginellegrenier
• 0 • written 5 months ago by
Clayton
• 0
0
votes
0
replies
179
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
25 days ago by
Aspire
▴ 330
0
votes
4
replies
428
views
Highest variable features in single cell data
single-cell
13 days ago by
carolofharvest
▴ 40
1
vote
3
replies
457
views
PCA plot
DESeq2
PCAplot
updated 21 days ago by
LauferVA
4.2k • written 25 days ago by
Aaliya
▴ 10
0
votes
0
replies
176
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
25 days ago by
4fzcgueyp5
• 0
0
votes
2
replies
315
views
Annovar using R package
Annovar
gnomAD
R
24 days ago by
DKA
▴ 40
0
votes
5
replies
447
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 24 days ago by
GenoMax
142k • written 25 days ago by
Bertalan_Takacs
▴ 90
0
votes
0
replies
172
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 25 days ago by
Ram
43k • written 25 days ago by
glaciya2018
• 0
0
votes
0
replies
331
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
25 days ago by
pramach1
▴ 40
0
votes
1
reply
213
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 25 days ago by
Sofia
• 0 • written 25 days ago by
mawigoj318
• 0
0
votes
0
replies
170
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
26 days ago by
salias
• 0
321 results • Page
5 of 7
Recent Votes
Answer: Q: GenomeScope input and how to interpret the results
Answer: How to find tandem duplications pattern in a DNA sequence
A: How To Split One Big Sequence File Into Multiple Files With Less Than 1000 Seque
C: Snakemake vs. Nextflow: strengths and weaknesses
Answer: workflow management system : WDL, CWL, Ruffus, SnakeMake, etc
Sequence alignment on split read event such as inversion, duplication and complex nested events.
ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
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Recent Awards •
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Popular Question
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manaswwm
▴ 510
Popular Question
to
Raghad
• 0
Scholar
to
Pierre Lindenbaum
161k
Voter
to
Sara
▴ 30
Popular Question
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carlopecoraro2
★ 2.5k
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scideas
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Muhammad
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Recent Replies
Comment: GO analysis: p-value range
by
Matthias Zepper
4.6k
It is just a warning that you add a new scale to a ggplot2 plot, that already has an existing one, which will get replaced. Nothing to worr…
Comment: GO analysis: p-value range
by
marco.barr
▴ 130
If you write me the code you used I can help you more
Comment: GO analysis: p-value range
by
sooni
▴ 20
When I run the code, the following message appears: Scale for y is already present. Adding another scale for y, which will replace…
Comment: Why most genes have high padj values
by
mnx0723
• 0
In the case of other samples, the total number of genes is at least 3,000 more than that one, but it seems to be a relatively small number.…
Comment: How to hide label in layout file of MCscan (python version)
by
jinyi
• 0
Command line is as follows: python -m jcvi.graphics.synteny Cs.Cm.i1.blocks Cs_Cm.bed layout2.txt
Comment: Add stats to the plot
by
marco.barr
▴ 130
Thank you, it seems to be clearer. Your Condition already has two factorial levels. You can replace these names in groups 1 and 2. da…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
marco.barr
▴ 130
Hi, I also had the same problem. If you check its github page there have been no releases for many years and these errors cannot be fixed. …
Comment: Add stats to the plot
by
Ghada
• 0
Thanks, thats really helpful ![enter image description here][1] ![enter image description here][2] [1]: /media/images/0470f3dc-5945-…
Comment: PCA Visualization error in R
by
marco.barr
▴ 130
SNPRelate is an R package that is able to read from VCF files directly and perform PCA and IBD/IBS. See the documentation for details in Bi…
Comment: Why most genes have high padj values
by
ATpoint
82k
788 differential genes is a lot. What is the problem?
Comment: Why most genes have high padj values
by
mnx0723
• 0
Sorry, I made edits.
Comment: Why most genes have high padj values
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…
Comment: GO analysis: p-value range
by
marco.barr
▴ 130
Try adding: `scale_y_continuous(breaks=seq(0, max_count, by=0.05))`
Comment: Functional enrichment analysis for unique gene IDs
by
ATpoint
82k
If these genes do not have a symbol then it is utterly unlikely that anyone has looked at their function. I would get their Ensembl IDs and…
Comment: Add stats to the plot
by
marco.barr
▴ 130
The error is likely due to the fact that the structure of your data in data4.ts and data2.ts may not contain the Condition values. The grou…
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