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116,770 results • Page
1 of 2336
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0
votes
0
replies
10
views
How to implement an IGV to streamlit app?
python
streamlit
igv
21 minutes ago by
avigail.shnaider
• 0
0
votes
4
replies
54
views
install.packages("imudata") - package ‘imudata’ is not available for this version of R
install.packages
r
10 minutes ago by
snajafy
• 0
0
votes
2
replies
113
views
Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so the model cannot be fit as specified.
DESeq2
updated 3 hours ago by
swbarnes2
14k • written 12 hours ago by
mropri
▴ 150
0
votes
1
reply
233
views
DMRcate ranges liftover hg19 to hg38
DMRcate
Liftover
DMR
Methylation
annotation
updated 7 hours ago by
aaron.stevens
• 0 • written 12 weeks ago by
sativus
▴ 20
2
votes
2
replies
145
views
STRING-DB API can't find my protein but I can find it when I go to the STRING-DB website directly
STRING-DB
protein
STRING-DB-API
9 hours ago by
brandon
• 0
795
votes
167
replies
142k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
0
votes
0
replies
65
views
Gene ontology and homologs
geneontology
bioinformatics
gene
updated 10 hours ago by
GenoMax
142k • written 13 hours ago by
beshka194
• 0
0
votes
0
replies
133
views
Tissue-specific DEG analysis with DEseq2
DEseq2
RNA-seq
DEG
R
updated 14 hours ago by
arctic
▴ 40 • written 2 days ago by
M.
▴ 30
0
votes
0
replies
60
views
Mitogenomes gap closure and making circular genome
gapclosure
Mitogenomes
validation
circulargenome
14 hours ago by
KHURRAM SHAHZAD
• 0
1
vote
4
replies
198
views
install package: package ‘gmwm’ is not available for this version of R
install.packages
r
updated 25 minutes ago by
zx8754
11k • written 17 hours ago by
snajafy
• 0
0
votes
0
replies
61
views
Looking for phytopathogenic, Nitrogen-Fixing, and Growth-Promoting databases for Metagenomic Analysis
Bacteria
Metagenomics
Database
16 hours ago by
Christopher
• 0
4
votes
1
reply
165
views
LD-prune variants while maintaining a list of SNPs
snp
vcf
plink
filtering
independent
updated 20 minutes ago by
zx8754
11k • written 1 day ago by
Jautis
▴ 560
2
votes
2
replies
242
views
Association study using SNP data
Association
Allele
Parentage
SNP
17 hours ago by
drajangirija
• 0
0
votes
0
replies
60
views
News:
Online course: Bioinformatic analysis of transposable elements
GenomeAssembly
Transcriptomics
TransposableElements
ManualCuration
19 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
73
views
Clarification on StringTie's `--merge` parameters
stringtie
stringtie-merge
20 hours ago by
DGTool
• 0
0
votes
0
replies
72
views
Seurat V5 integration
Seurat
samples
integration
combine
22 hours ago by
starswillfade
▴ 10
0
votes
0
replies
83
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
1 day ago by
Yoosef
▴ 60
0
votes
1
reply
287
views
Job:
Seeking Bioinformatics/Drug Design Opportunities - PhD in Pharmacology with Experience in RNA-seq, CADD & Deep Learning Molecular Generation
search
job
updated 19 hours ago by
GenoMax
142k • written 1 day ago by
tulip
• 0
2
votes
3
replies
312
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
4
votes
2
replies
198
views
GRCh38.gmap file
gnomix
gmap
1 day ago by
lorena9132
▴ 10
2
votes
3
replies
769
views
Issues with Mixture file when using CIBERSORTx
Deconvolution
CIBERSORTx
updated 1 day ago by
vjanve
• 0 • written 7 months ago by
mateomejias
• 0
0
votes
2
replies
204
views
creating batch colum for batch correction
batch-correction
combat
updated 1 day ago by
Ram
43k • written 1 day ago by
Expert
▴ 10
1
vote
4
replies
291
views
Segmentation error while using a tool
smalt
updated 1 day ago by
Mensur Dlakic
★ 27k • written 2 days ago by
Ruqaiya
• 0
0
votes
1
reply
149
views
Help with DGEList function
DGEList
R
updated 10 hours ago by
marco.barr
▴ 90 • written 1 day ago by
Natali
• 0
0
votes
0
replies
101
views
Homer motif analysis
Homer
1 day ago by
daffodil
▴ 10
0
votes
1
reply
146
views
HCL database download
database
HCL
human
updated 2 days ago by
GenoMax
142k • written 2 days ago by
sooni
▴ 20
1
vote
2
replies
1.1k
views
News:
The GDC Legacy Archive is retiring soon.
genomic-data-commons
tcga
gdc
1 day ago by
Zhenyu Zhang
★ 1.2k
2
votes
1
reply
252
views
Force PLINK2 to neglect chrX as the sex chromosome
PLINK2
updated 2 days ago by
chrchang523
10k • written 5 days ago by
8armed
▴ 10
0
votes
5
replies
304
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
0
votes
1
reply
141
views
Quetion regarding WGCNA
WGCNA
Network-construction
updated 1 hour ago by
andres.firrincieli
3.6k • written 2 days ago by
deepak180001
• 0
0
votes
1
reply
175
views
visualize GSEA
barplot
RNA-seq
GSEA
enrichment
updated 1 day ago by
Ram
43k • written 2 days ago by
Rob
▴ 170
0
votes
1
reply
170
views
fastq screen aligner no specified.
BWA
Bowtie2
FastqScreen
updated 2 days ago by
GenoMax
142k • written 2 days ago by
Ximena
• 0
0
votes
1
reply
166
views
filtering before dada2
bbduk
qiime2
dada2
metagenomic
updated 2 days ago by
Ram
43k • written 2 days ago by
Valentina
• 0
0
votes
6
replies
368
views
Differential Expression Analysis using DESeq2 in R
deseq2
R
updated 2 days ago by
swbarnes2
14k • written 2 days ago by
Erina
• 0
0
votes
1
reply
163
views
Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read reverse strand" (flag 32/0x20)
PE
BAM
SAM
flag
paired-end
updated 2 days ago by
swbarnes2
14k • written 2 days ago by
kalavattam
▴ 190
1
vote
3
replies
239
views
TaxID mapping file
annotation
blobtools
RNAseq
decontamination
transcriptomes
14 hours ago by
Lada
▴ 30
1
vote
0
replies
124
views
.lgen file has 3+ different alleles
PLINK
lgen
ped
updated 20 minutes ago by
zx8754
11k • written 2 days ago by
Emilie
▴ 10
0
votes
0
replies
121
views
vcf procesing for ML antigen prediction
formats
vcf
fastaq
HLA_imputation
HLA_typing
2 days ago by
Javier
• 0
0
votes
1
reply
213
views
Extracting mutation status from MAF files - TCGA
TCGA
maf
mutation
updated 2 days ago by
Thanujay S
• 0 • written 2 days ago by
yahn
• 0
0
votes
0
replies
117
views
IGV interpretation for ATM gene for chromosome 11 for a deceased partient suspected of having melanoma
genetic
Variant
predisposition
2 days ago by
mikemakaveli1
• 0
2
votes
2
replies
199
views
Raw counts using stringtie
stringtie
RNA-seq
updated 2 days ago by
GenoMax
142k • written 2 days ago by
ahmad.sajad4541
• 0
0
votes
0
replies
118
views
Modify plot R mtDNA indel
plot
mtDNA
R
2 days ago by
marco.barr
▴ 90
0
votes
0
replies
230
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
2
votes
2
replies
204
views
Analysis of intronic reads included scRNA-seq data
single-cell
updated 1 day ago by
Ram
43k • written 2 days ago by
carolofharvest
▴ 30
9
votes
9
replies
548
views
High Malat-1 expression in single cell data
single-cell
updated 1 day ago by
Ram
43k • written 6 days ago by
carolofharvest
▴ 30
0
votes
2
replies
228
views
Downloading older version of a tool
Alignment
tools
2 days ago by
Ruqaiya
• 0
0
votes
0
replies
137
views
Generating illumina interops SAV like plots for multiqc reports on HPC
visualization
illumina
ngs
sequencing
2 days ago by
rustykb
▴ 20
1
vote
1
reply
170
views
DSEQ2 analysis
DESEQ2
logfoldchange
updated 1 day ago by
Ram
43k • written 2 days ago by
adi.gershon1
• 0
3
votes
5
replies
259
views
Generating mpileup file using samtools
mpileup
samtools
updated 2 days ago by
Joe
21k • written 2 days ago by
Ruqaiya
• 0
0
votes
5
replies
336
views
6 follow
What purposes can TPM values be used for?
RNA-seq
TPM
Normalization
DESeq2
updated 2 days ago by
b.contreras.moreira
▴ 180 • written 3 days ago by
JH
• 0
116,770 results • Page
1 of 2336
Recent Votes
Answer: Association study using SNP data
.lgen file has 3+ different alleles
Force PLINK2 to neglect chrX as the sex chromosome
Answer: Force PLINK2 to neglect chrX as the sex chromosome
LD-prune variants while maintaining a list of SNPs
Answer: LD-prune variants while maintaining a list of SNPs
Answer: ERROR When Using Ensembl Plants Biomart Wget API
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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
ATpoint
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
by
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
by
swbarnes2
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 …
Comment: Truncated Bam Error
by
guanghao
• 0
I also have this problem, but it doesn't work even I remove the Xms32g. The result bam is still malformed.
Answer: DMRcate ranges liftover hg19 to hg38
by
aaron.stevens
• 0
Hey, I believe they are mapped to hg19 and this is potentially a bigger problem than people realise, I nearly made this mistake and I would…
Comment: STRING-DB API can't find my protein but I can find it when I go to the STRING-DB
by
brandon
• 0
This worked beautifully using 'requests.get()' in python, thank you so much!
Answer: STRING-DB API can't find my protein but I can find it when I go to the STRING-DB
by
Pierre Lindenbaum
161k
first get the main ID in stringdb: $ wget -qO - "https://string-db.org/api/tsv-no-header/get_string_ids?identifiers=RPS4Y1&species=960…
Comment: Help with DGEList function
by
marco.barr
▴ 90
Are you sure you've loaded the library properly? Have you checked if edgeR is ticked in the list of installed packages? Double-check it. If…
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