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117,038 results • Page
1 of 2341
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Votes
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0
votes
0
replies
12
views
CreateSeuratObject taking very long
seurat
1 hour ago by
eae6d2e7
• 0
0
votes
0
replies
23
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
2 hours ago by
Christopher
• 0
1
vote
2
replies
121
views
Elbow plot question (scRNA seq data analysis - scanpy tutorial)
scanpy
6 hours ago by
ojaswinipandey
• 0
0
votes
1
reply
89
views
Kraken2 Custom Database non-deterministic results
Metagenomics
kraken2
updated 8 hours ago by
GenoMax
142k • written 9 hours ago by
Bjorn
• 0
799
votes
167
replies
144k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.8k • written 7.5 years ago by
Istvan Albert
100k
1
vote
4
replies
208
views
How to find SRA sequences of some fungal whole genome sequences if only Biosample ID is available?
SRA
whole-genome-sequencing
NCBI
updated 8 hours ago by
Ram
43k • written 10 hours ago by
Harshita
• 0
2
votes
4
replies
159
views
Filter Genome for Specific Sites
bedtools
updated 8 hours ago by
Ram
43k • written 10 hours ago by
Anita
• 0
0
votes
3
replies
188
views
Error in using BioSampleParser tool: subscript out of bounds
R
updated 7 hours ago by
marco.barr
▴ 130 • written 1 day ago by
Mohamed Samir
▴ 20
1
vote
1
reply
79
views
Generating Group/Cluster Lists from fastq files
Sequencing
RNA-seq
DNA-Seq
updated 12 hours ago by
GenoMax
142k • written 12 hours ago by
niruf
• 0
0
votes
0
replies
51
views
News:
Online course: Network analysis in Systems Biology with R/Bioconductor
Bioconductor
Systems-Biology
Network-Analysis
R
updated 8 hours ago by
Ram
43k • written 12 hours ago by
carlopecoraro2
★ 2.5k
2
votes
0
replies
74
views
Herald:
The Biostar Herald for Monday, May 20, 2024
herald
13 hours ago by
Biostar
2.8k
1
vote
3
replies
307
views
Super ehancers
enhancers
updated 12 hours ago by
GenoMax
142k • written 18 days ago by
Oburah
• 0
0
votes
0
replies
58
views
vcf phasing
beagle
WhatsHap
phasing
13 hours ago by
safeassli
▴ 10
0
votes
2
replies
165
views
How to generate an Upset plot in R to plot the shared variants between cell free DNA samples
r
Upset
10 hours ago by
sainavyav22
• 0
0
votes
1
reply
575
views
Illumina methylation EPIC V2 array
ewas
methylation
enrichment
missMethyl
EPIC
updated 14 hours ago by
fu_entomology
▴ 40 • written 8 months ago by
juliviglino
• 0
1
vote
2
replies
149
views
How to find identical sequences in genome fasta file (by Python or any possible program) ?
fasta
updated 11 hours ago by
Ram
43k • written 21 hours ago by
Sony
▴ 10
0
votes
3
replies
158
views
GATK Structural Variants Pipeline - Steps
SV
GATK
Variant-Calling
updated 13 hours ago by
Ram
43k • written 17 hours ago by
Bioinformatics_begginner
▴ 20
0
votes
0
replies
62
views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
Seurat
single-cell
scRNA-seq
updated 11 hours ago by
Ram
43k • written 17 hours ago by
ev97
▴ 20
0
votes
1
reply
109
views
GO analysis: Indicate genes corresponding to the pathway
GeneOntoloy
GO
R
updated 15 hours ago by
marco.barr
▴ 130 • written 18 hours ago by
sooni
▴ 20
0
votes
1
reply
80
views
How to hide label in layout file of MCscan (python version)
MCscan
updated 14 hours ago by
GenoMax
142k • written 18 hours ago by
jinyi
• 0
0
votes
0
replies
61
views
ENCORI or starBase : ceRNA data retrieval using Web API and curl
ceRNA
ENCORI
curl
microRNA
starBase
19 hours ago by
V_Vibes
• 0
0
votes
0
replies
101
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated 8 hours ago by
Ram
43k • written 19 hours ago by
JorgeVallejo
▴ 20
0
votes
0
replies
76
views
transcriptome annotation
annotation
trinity
transcriptome
updated 13 hours ago by
Ram
43k • written 20 hours ago by
Asim Bin Arshad
• 0
0
votes
5
replies
203
views
Why most genes have high padj values
RNA-seq
DEG
updated 11 hours ago by
Ram
43k • written 20 hours ago by
mnx0723
• 0
7
votes
14
replies
2.9k
views
6 follow
How to find tandem duplications pattern in a DNA sequence
Repeat
updated 21 hours ago by
micah
▴ 30 • written 3.1 years ago by
kumajis
• 0
0
votes
1
reply
107
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
updated 21 hours ago by
ATpoint
82k • written 23 hours ago by
Pegasus
▴ 100
0
votes
1
reply
122
views
PCA Visualization error in R - arguments imply differing number of rows
SNPs
PCA
GBS
LINUX
r
updated 19 hours ago by
zx8754
11k • written 1 day ago by
Ali
• 0
0
votes
4
replies
224
views
GO analysis: p-value range
GO
R
updated 17 hours ago by
Matthias Zepper
4.6k • written 1 day ago by
sooni
▴ 20
1
vote
2
replies
158
views
News:
ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
BestTalk
PlatformPresentation
offtopic
updated 8 hours ago by
Ram
43k • written 1 day ago by
Dr.
• 0
0
votes
3
replies
222
views
seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from input file
subseq
seqtk
extractionproblem
updated 16 hours ago by
GenoMax
142k • written 1 day ago by
KHURRAM SHAHZAD
• 0
0
votes
0
replies
87
views
Challenges of Affymetrix probe IDs for grouping similar genes to calculate their mean
R
Mean
Affymetrix
Probes
Grouping
1 day ago by
Maryam
• 0
1
vote
7
replies
390
views
Add stats to the plot
R
1 day ago by
Ghada
• 0
0
votes
4
replies
308
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
rna-seq
1 day ago by
Bibi
• 0
1
vote
2
replies
340
views
is there a tool to recover corrupted fastq files
fastq
short-read
updated 1 day ago by
Tommaso
• 0 • written 3 months ago by
pt.taklifi
▴ 60
0
votes
0
replies
101
views
handling bio replicates for chromHMM
replicates
chromHMM
1 day ago by
Hasan_Daaboul
• 0
0
votes
0
replies
92
views
Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell
communication
ligand-receptor
self-regulation
1 day ago by
DGTool
▴ 20
0
votes
1
reply
153
views
geom_bar issue in ggplot2 with xlim()
geom_bar
ggplot2
statistics
R
updated 1 day ago by
ATpoint
82k • written 1 day ago by
rj.rezwan
• 0
0
votes
2
replies
304
views
Design for complex RNA-Seq experiment using Deseq2
Model.Matrix
RNA-Seq
Limma
DESeq2
edgeR
1 day ago by
Ezequiel
• 0
2
votes
0
replies
175
views
Tool:
Sequence alignment on split read event such as inversion, duplication and complex nested events.
minimap
alignment
NGMLR
1 day ago by
micah
▴ 30
0
votes
0
replies
109
views
problems in installing rDock
rDock
updated 8 hours ago by
Ram
43k • written 1 day ago by
Rodolfo Adrián
• 0
1
vote
6
replies
1.5k
views
CellRanger output more cells than specified using --force-cells? Why?
scRNA-seq
cellranger
updated 1 day ago by
scideas
▴ 30 • written 8 months ago by
rohitsatyam102
▴ 870
1
vote
2
replies
715
views
Checking chromosome builds for genotyping data
GWAS
Liftover
PLINK
updated 2 days ago by
Muhammad
• 0 • written 2.6 years ago by
mari.johnson
• 0
1
vote
1
reply
331
views
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
CIBERSORTx
cibersort
error
RNA-Seq
deconvolution
updated 2 days ago by
nguyenn6
• 0 • written 3 months ago by
star
▴ 10
0
votes
0
replies
131
views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
R
updated 2 days ago by
Pierre Lindenbaum
161k • written 2 days ago by
Mohamed Samir
▴ 20
0
votes
0
replies
137
views
Tera-scale metagenomic coassembly tool
co-assembly
Metagenomics
2 days ago by
Moinuddin
• 0
0
votes
1
reply
179
views
Broad and Narrow peaks
ATAC
ChIP
seq
updated 2 days ago by
ATpoint
82k • written 2 days ago by
Jacek
▴ 20
2
votes
1
reply
249
views
RNAseq coverage vs depth for transcript isoform expression?
RNAseq
updated 2 days ago by
Gordon Smyth
★ 7.2k • written 3 days ago by
marineandriot
• 0
0
votes
0
replies
140
views
How can i use ESM-1v ?
VEP
ESM-1v
3 days ago by
Meto
• 0
0
votes
0
replies
153
views
Cell type annotation mixed with other type cells
cell
annotation.
updated 3 days ago by
GenoMax
142k • written 3 days ago by
Long
• 0
0
votes
3
replies
306
views
Trimming tool
Trimming
updated 8 hours ago by
Ram
43k • written 3 days ago by
GeneC
• 0
117,038 results • Page
1 of 2341
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A: Generate Vcf.Gz File And Its Index File Vcf.Gz.Tbi
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
A: Bcftools merge taking too much time and producing large file
Answer: Kraken2 database
A: Why gene expression data should be log2 transformed?
Answer: Filter Genome for Specific Sites
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Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Hello I have a quick question, I did as you said , and further added the traits, found the correlation among the modules and the traits us…
Comment: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
ojaswinipandey
• 0
Thank you so much Dave.
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
Dave Carlson
★ 1.7k
The y axis represents the proportion of the total variance explained by each principal component. It's negative because the value (between…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
marco.barr
▴ 130
Hi Mohamed, I also thought the same thing but we run the risk of inserting other errors perhaps by modifying the function. I tried but I ha…
Comment: Trimming tool
by
Ram
43k
Please do a few simple Google searches before asking others for help.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
This post does not fit the theme of this forum.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
Hi, Congratulations but this is not LinkedIn, we are not a place to showcase your professional accomplishments. This does not fall under t…
Comment: Kraken2 Custom Database non-deterministic results
by
GenoMax
142k
Many (most?) programs related to NGS data analysis produce non-deterministic output (unless they explicitly offer an option to produce dete…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
For those samples it appears that raw data was not submitted. Just an assembly. $ esearch -db biosample -query SAMN08009548 | elink -…
Comment: How can I calculate the OS of each patient?
by
Pedro
• 0
**I have already tried this code. listSamples with HNSC cancer and smokers. I need at least one supporting material to find out the survi…
Comment: Filter Genome for Specific Sites
by
Anita
• 0
Great, thank you!
Comment: Filter Genome for Specific Sites
by
Anita
• 0
This is unhelpful and doesn't answer my question.
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
It seems that the authors in this paper have used paired-end sequences only for their analysis, and for that, they would also have used the…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
Thank you so much for helping me out in this! I have used most of the sequences that are found in this table. But, some samples like the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
Looks like the samples are from this project: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA320483&o=acc_s%3Aa This table has the SR…
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