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Limit : this week
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184 results • Page
2 of 4
Sort: Views
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Views
Votes
Replies
0
votes
3
replies
340
views
CWl and toil singularity image e.g busybox? Thank you
toil
singularity
updated 6 days ago by
Ram
43k • written 4 months ago by
Fadi
• 0
1
vote
5
replies
328
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
3 days ago by
Riccardo
▴ 10
3
votes
3
replies
324
views
Is it possible to bulk download files from GEO repository?
RNA-seq
Galaxy
Tanscriptomics
updated 6 days ago by
noodle
▴ 580 • written 7 days ago by
WUSCHEL
▴ 750
2
votes
3
replies
320
views
Design matrix Differential expression analysis
RNA-seq
Differential-expression
updated 1 day ago by
Gordon Smyth
★ 7.1k • written 2 days ago by
SHN
▴ 40
0
votes
5
replies
310
views
Easy way to find out which allele is minor allele from bed file?
plink
updated 2 days ago by
chrchang523
10k • written 2 days ago by
curious
▴ 750
3
votes
3
replies
311
views
What analysis suitable to identify similarly expressed genes between two samples (treated vs untreated). Contrary to DGE analysis,
Gene-Expression
RNA
NOISeq
DGE
updated 3 days ago by
ATpoint
82k • written 3 days ago by
alifafiq1
• 0
0
votes
5
replies
310
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
updated 3 days ago by
Mohamed Abderrahmane
▴ 20 • written 7 days ago by
matteo.levorato
• 0
3
votes
5
replies
307
views
Converting CRAM to FastQ
GATK
samtools
cram
SamToFastq
fastq
2 days ago by
Maverick
▴ 10
4
votes
2
replies
307
views
How to use limma to find differentially expressed genes in response to a continuous variable
limma
voom
R
6 days ago by
pairedttest
▴ 10
1
vote
3
replies
306
views
DESeq2 processing problems
deseq2
R
updated 4 days ago by
ATpoint
82k • written 5 days ago by
jagdish7921
• 0
1
vote
4
replies
299
views
Segmentation error while using a tool
smalt
updated 2 days ago by
Mensur Dlakic
★ 27k • written 2 days ago by
Ruqaiya
• 0
0
votes
1
reply
299
views
Job:
Seeking Bioinformatics/Drug Design Opportunities - PhD in Pharmacology with Experience in RNA-seq, CADD & Deep Learning Molecular Generation
search
job
updated 23 hours ago by
GenoMax
142k • written 1 day ago by
tulip
• 0
2
votes
4
replies
294
views
from row count to tpm
tpm
row-count
normalization
updated 5 days ago by
Ram
43k • written 13 days ago by
michelafrancesconi9
▴ 20
0
votes
3
replies
293
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 6 days ago by
GenoMax
142k • written 6 days ago by
kim
• 0
1
vote
2
replies
290
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
5 days ago by
Nafi
• 0
0
votes
1
reply
289
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
6 days ago by
David Langenberger
11k
0
votes
6
replies
288
views
How does gene length effect the number of reads mapped
RNA-seq
CPM
sequencing
updated 2 days ago by
dsull
★ 6.0k • written 3 days ago by
Chen
• 0
0
votes
3
replies
285
views
KEGG Pathways
r
RNA-seq
updated 5 days ago by
Ram
43k • written 6 days ago by
Sudip
• 0
5
votes
3
replies
282
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 6 days ago by
Lluís R.
★ 1.2k • written 6 days ago by
이민경[학생](대학원 융합의과학과)
• 0
1
vote
3
replies
280
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 5 days ago by
GenoMax
142k • written 5 days ago by
jeffrey.maurer.informatics
• 0
1
vote
2
replies
280
views
read length in structural variant calling
nanopore
SV
QC
ONT
variant
3 days ago by
eebloom
▴ 80
1
vote
3
replies
279
views
Does comparing two different groups to a common third group introduce bias in the analysis?
DESEQ
RNAseq
updated 3 days ago by
ATpoint
82k • written 3 days ago by
Qi
• 0
0
votes
1
reply
275
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
updated 4 days ago by
Scooter
▴ 280 • written 10 days ago by
avocado123
• 0
2
votes
2
replies
274
views
p-value in CIBERSORT
CIBERSORT
p-value
5 days ago by
michelafrancesconi9
▴ 20
0
votes
4
replies
273
views
Perfom a Gene Ontology Analysis from GO terms txt file
RNA-Seq
GO
updated 6 days ago by
Ram
43k • written 6 days ago by
Hamtaro
▴ 50
2
votes
3
replies
273
views
Help with choosing a model species for Augustus for a de novo assembled genome.
augustus
annotation
assembly
genome
updated 2 days ago by
dthorbur
★ 1.9k • written 3 days ago by
Vijith
▴ 30
1
vote
3
replies
271
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
7 hours ago by
Dora
▴ 10
5
votes
5
replies
269
views
Problem with data downloaded from Short Reads Archive (SRA)
SRA
DADA2
metabarcoding
updated 3 days ago by
atharvakarkare14
▴ 30 • written 4 days ago by
Begonia_pavonina
▴ 150
3
votes
5
replies
266
views
Generating mpileup file using samtools
mpileup
samtools
updated 2 days ago by
Joe
21k • written 3 days ago by
Ruqaiya
• 0
2
votes
1
reply
262
views
Force PLINK2 to neglect chrX as the sex chromosome
PLINK2
updated 2 days ago by
chrchang523
10k • written 6 days ago by
8armed
▴ 10
0
votes
4
replies
263
views
Genbank File Format
gbkformat
6 days ago by
alenew.am
• 0
2
votes
2
replies
255
views
Association study using SNP data
Association
Allele
Parentage
SNP
21 hours ago by
drajangirija
• 0
1
vote
3
replies
253
views
TaxID mapping file
annotation
blobtools
RNAseq
decontamination
transcriptomes
18 hours ago by
Lada
▴ 30
1
vote
3
replies
251
views
Bedtools merge minimum overlap?
bedtools
genomics
updated 3 days ago by
Alex Reynolds
35k • written 3 days ago by
SJP
• 0
1
vote
2
replies
250
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
4 days ago by
rianna.collins
• 0
0
votes
1
reply
250
views
DMRcate ranges liftover hg19 to hg38
DMRcate
Liftover
DMR
Methylation
annotation
updated 11 hours ago by
aaron.stevens
• 0 • written 12 weeks ago by
sativus
▴ 20
1
vote
4
replies
247
views
install package: package ‘gmwm’ is not available for this version of R
install.packages
r
updated 4 hours ago by
zx8754
11k • written 21 hours ago by
snajafy
• 0
0
votes
0
replies
238
views
Re-Import modified clusterProfiler's GSEA result from .csv for graphical output-generation (i.e. cnetplot, heatplot)
enrichplot
graphical_output
GSEA
clusterProfiler
2 days ago by
NorbertK
• 0
0
votes
2
replies
234
views
Downloading older version of a tool
Alignment
tools
2 days ago by
Ruqaiya
• 0
1
vote
3
replies
234
views
Odd alignment question/finding
Alignment
updated 3 days ago by
barslmn
★ 2.1k • written 4 days ago by
poordumbsillyidiot
• 0
1
vote
1
reply
234
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 6 days ago by
Michael
54k • written 6 days ago by
Lissa Cruz Saavedra
• 0
1
vote
2
replies
234
views
RNA-seq data for deep learning classification
rna-seq
3 days ago by
yahn
• 0
0
votes
0
replies
233
views
Assist me in determining whether the analysis process using the limma package has been executed correctly
limma
ArrayExpress
DifferentialExpression
GEOquery
6 days ago by
SSSJec
• 0
1
vote
1
reply
232
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 5 days ago by
Ram
43k • written 5 days ago by
Jonathan Yoou
▴ 60
0
votes
2
replies
232
views
How to update R on ubuntu
installation
update
R
apt-get
6 days ago by
Bosberg
▴ 50
1
vote
3
replies
232
views
DiffBind: no peaks in DBA
MACS2
DiffBind
ChIP-seq
updated 3 days ago by
jared.andrews07
★ 16k • written 3 days ago by
yvonneh
▴ 10
1
vote
2
replies
228
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 5 days ago by
Ram
43k • written 6 days ago by
Ravita
• 0
1
vote
2
replies
224
views
Downloading full alignments from Pfam
pfam
22 hours ago by
bef1
• 0
0
votes
1
reply
222
views
Subsetting and merging back Seurat Object brings different results
Seurat
3 days ago by
Bine
▴ 60
0
votes
1
reply
220
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 4 days ago by
Adam
▴ 30 • written 5 days ago by
J
• 0
184 results • Page
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Answer: Can I merge Hi-C fastq files from different lanes?
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Answer: Hide positions in alignment with 99% "–" characters to ignore single sequence in
Answer: Association study using SNP data
.lgen file has 3+ different alleles
Force PLINK2 to neglect chrX as the sex chromosome
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Comment: High Malat-1 expression in single cell data
by
t.montserrat.ayuso
▴ 10
Just using the normalized expression of Malat1 works.
Comment: Can I merge Hi-C fastq files from different lanes?
by
Winter
• 0
Awesome, thank you for the concise and straight-forward answer!
Comment: error in R code
by
ATpoint
82k
Look, before you keep posting these sorts of questions and might gross of users, please read and follow https://www.biostars.org/p/357878/ …
Comment: Gene Specific coverage from WGS data
by
1769mkc
★ 1.2k
"Also if is there any other quick way to find gene specific coverage" can you give some example so that its bit more clear what do you mean…
Answer: Tissue-specific DEG analysis with DEseq2
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82k
I assume that all data are from the same experiment, without batch effects and can thus be quantitiatively compared: Many ways to do thi…
Comment: install.packages("imudata") - package ‘imudata’ is not available for this versio
by
snajafy
• 0
I am facing the same problem and I don't know how to solve the problem,....
Comment: install.packages("imudata")
by
zx8754
11k
[How should I deal with "package 'xxx' is not available (for R version x.y.z)" warning?](https://stackoverflow.com/q/25721884/680068)
Answer: install.packages("imudata")
by
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82k
Welcome to this community. Please learn the most important lesson right away which is reading answers and learning from it. Users gave you …
Comment: install.packages("imudata")
by
marco.barr
▴ 90
You can install from github directly. Many R packages are not present in the CRAN repository or in Bioconductor( from Biocmanager). Also re…
Comment: install package
by
snajafy
• 0
Hi, Thanks for your answer, I do it, but I get this error: ERROR: compilation failed for package 'gmwm' removing 'C:/Users/najafi/AppData/…
Comment: Quetion regarding WGCNA
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andres.firrincieli
3.6k
There is something wrong with your data but without any context I can't really answer to your question. I would like to see a PCA plot of …
Comment: error to run rnammer
by
antonio.spl
• 0
please could you tell me what was the solution, I am having the same problem, I only get empty files.
Comment: install package
by
snajafy
• 0
Hi, Thanks for your answer, I do it, but I get this error: ERROR: compilation failed for package 'gmwm' * removing 'C:/Users/najafi/AppData…
Answer: Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so t
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14k
Any chance the numerical columns were imported as factors?
Comment: ERROR When Using Ensembl Plants Biomart Wget API
by
Dora
▴ 10
Thank you very much, that works perfectly :) ! Maybe someone needs to use a plant dataset as an example (instead of human dataset ) in the …
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