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122,013 results • Page 294 of 2441
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4
votes
0
replies
680
views
Pseudotime and trajectory analysis on CIBEROSRTx GEP data
GEP trajectory-analysis CIBERSORTx
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 50
1
vote
2
replies
1.2k
views
Gene expression normalization sample-wise or feature-wise? which one is the recommended way?
normalization gene-expression
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 10
0
votes
2
replies
981
views
Need help with IGV interpretation
WGS IGV Sequencing
2.6 years ago by Hyper_Odin ▴ 320
0
votes
0
replies
739
views
How to investigate correlation between transcript and protein abundance?
regulation data-mining gene correlation
2.6 years ago by Wang Cong ▴ 20
0
votes
0
replies
568
views
News: course - single-cell RNAseq with R/Bioconductor
Bioconductor single-cell genomics RNAseq
updated 2.6 years ago by 45k • written 2.6 years ago by ★ 2.7k
1
vote
3
replies
1.2k
views
biomaRt crashes R studio
biomaRt
updated 2.6 years ago by 5.1k • written 2.6 years ago by ▴ 130
0
votes
1
reply
791
views
bcftools unable to tag poor variant calls properly
bcftools gatk vafator
updated 2.3 years ago by 45k • written 2.6 years ago by ▴ 940
0
votes
1
reply
845
views
Can I plot points on world map by coordinates or decimal longitude/latitude data using R rworldmap or rnaturalearth?
r rnaturalearth rworldmap map
updated 2.6 years ago by ★ 30k • written 2.6 years ago by • 0
0
votes
1
reply
1.3k
views
Base recalibration
base-recalibration
updated 2.6 years ago by 45k • written 2.7 years ago by • 0
0
votes
1
reply
998
views
Cytoscape node table coloring style cannot be transferred?
Cytoscape
updated 2.6 years ago by ▴ 310 • written 2.7 years ago by • 0
0
votes
3
replies
1.3k
views
What technologies are needed to quickly produce a bioinformatics analysis platform with front and back ends control?
web analysis platform
updated 2.6 years ago by ▴ 260 • written 2.6 years ago by ▴ 10
0
votes
1
reply
711
views
What happens if you run an already soft-masked sequence on RepeatMasker again?
repeats
updated 2.6 years ago by ★ 1.3k • written 2.6 years ago by • 0
5
votes
13
replies
14k
views
conda create env using .yml file leads to dependency conflicts
yml conda
updated 2.6 years ago by 9.8k • written 2.6 years ago by ▴ 10
1
vote
1
reply
856
views
error while submitting a Rscript job through slurm
slurm R
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 150
4
votes
4
replies
1.6k
views
ENSG-like CATG Identifier?
RNA-Seq
updated 2.6 years ago by 154k • written 5.6 years ago by ▴ 40
0
votes
0
replies
1.0k
views
integration using rPCA with reference or without it?
integration Seurat rPCA Single-cell
2.6 years ago by paria ▴ 110
0
votes
5
replies
1.1k
views
Extract read positions from a bas file and use as a list in Python
bam python
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 10
0
votes
0
replies
613
views
Depth of Coverage
Data Coverage WES Filtering
2.6 years ago by Fatemeh Nabizadeh ▴ 10
3
votes
6
replies
2.9k
views
SVA vs limma model
r combat sva microaray batch-effect
2.6 years ago by rk.khayami94 ▴ 10
2
votes
3
replies
3.2k
views
Fetching UniProt ID Mapping results as TSV using Python?
uniprot python tsv json
2.6 years ago by Eliveri ▴ 350
3
votes
5
replies
2.6k
views
Can anyone help me install ambertool for Mac M1 silicon?
Amber Ambertools Protein-ligand cpptraj
updated 2.6 years ago by 45k • written 2.6 years ago by • 0
3
votes
3
replies
2.8k
views
Getting a curl: (22) The requested URL returned error: 500 ERROR
ncbi
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 180
3
votes
4
replies
1.4k
views
Search for descriptions corresponding to a list of go terms
gene-ontology go-term
updated 2.6 years ago by 154k • written 2.6 years ago by • 0
0
votes
0
replies
952
views
Job: Post-doc in microRNA bioinformatics (up to 2 years): Prediction of single-cell miRNA-seq data in cancer
cancer microRNA R machine-learning
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 60
0
votes
0
replies
885
views
Job: Senior Biomedical Scientist - Job Vacancy
UKHSA
2.6 years ago by Janisha.chauhan • 0
4
votes
3
replies
1.4k
views
Is there a package that can do downstream analysis of single-cell V(D)J sequencing?
single-cell-VDJ
2.6 years ago by Dan ▴ 180
22
votes
28
replies
23k
views
14 follow
Easy way to split VCF file by chromosome
sequence TOPMED chromosome Imputation SNP
updated 12 months ago by 166k • written 3.7 years ago by ▴ 60
0
votes
1
reply
811
views
Confusion regarding number of haplotype on DNaSP6
DnaSP6 of number haplotypes shared
updated 2.6 years ago by ★ 3.0k • written 2.6 years ago by • 0
15
votes
21
replies
5.4k
views
6 follow
Aberrant splicing in bulk RNAseq
aberrant-splicing transcript isoform exon
updated 2.4 years ago by • 0 • written 2.7 years ago by ▴ 250
0
votes
1
reply
907
views
PLINK - analyzing summary stats
LD GWAS PLINK
updated 2.6 years ago by ★ 3.0k • written 2.6 years ago by ▴ 10
0
votes
1
reply
2.6k
views
Error in idx[i, ] <- res[[i]][[1]] : number of items to replace is not a multiple of replacement length
Seurat R
updated 2.6 years ago by 45k • written 2.9 years ago by • 0
0
votes
5
replies
1.9k
views
MissAssembly Correction
ngs assembly
updated 2.6 years ago by ▴ 600 • written 2.7 years ago by ▴ 350
32
votes
14
replies
30k
views
15 follow
Where can I find public Single Cell RNA-seq data?
RNA-Seq sequencing
updated 2.6 years ago by • 0 • written 9.1 years ago by ▴ 140
1
vote
7
replies
2.7k
views
DGE/DEG Analysis for comparing multiple cell lines
RNA-Seq GeneExpression DESEQ2
2.6 years ago by joe_genome ▴ 70
0
votes
2
replies
831
views
Highly Diffrentially Expressed miRNA from qPCR data
miRNA R DEG
2.6 years ago by Maria17 ▴ 40
0
votes
4
replies
2.5k
views
GATK error of Argument --emit-ref-confidence
argument GATK HaplotypeCaller
2.6 years ago by rj.rezwan ▴ 20
0
votes
3
replies
1.3k
views
Aligners that can handle sequences with Ns
alignment
updated 2.6 years ago by 154k • written 2.6 years ago by • 0
0
votes
0
replies
713
views
MatrixEQTL output t-statistics
QTL matrixEQTL analysis
2.6 years ago by vicky ▴ 30
1
vote
2
replies
2.5k
views
'gpar' element 'fill' must not be length 0
element pheatmap gpar
2.6 years ago by san96 ▴ 190
0
votes
3
replies
2.5k
views
Seurat Metadata to Dataframe Manipulation
rstudio seurat scrna-seq
updated 2.6 years ago by ▴ 430 • written 2.6 years ago by ▴ 30
16
votes
14
replies
11k
views
6 follow
Get TPM from RNA counts and gene length?
EdgeR RNA counts TPM
2.1 years ago by cthangav ▴ 110
0
votes
0
replies
864
views
In mclapply(argsList, FUN, mc.preschedule = preschedule, mc.set.seed = set.seed, : scheduled cores 1, 2 did not deliver results, all values of the…
mclapply doMC R
2.6 years ago by wangjincheng • 0
1
vote
1
reply
593
views
What are the best practices when storing sub-sequences in a Fasta file?
fasta
updated 2.6 years ago by 154k • written 2.6 years ago by ▴ 20
0
votes
1
reply
1.4k
views
mirge3.0 custom miRNA db option
database custom miRNA mirge3.0
updated 2.6 years ago by • 0 • written 4.3 years ago by ▴ 280
0
votes
8
replies
2.6k
views
small RNA Workflow
RNA-Seq miRNA smallRNA
updated 2.6 years ago by • 0 • written 5.4 years ago by ▴ 50
3
votes
2
replies
1.4k
views
Small viral contigs in denovo assembly using spades
denovo-assembly spades viral-genomes
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 70
6
votes
6
replies
2.4k
views
Use single cell sequencing bam file to tell if a patient has a mutation
Cell Single RNA sequencing
2.6 years ago by mropri ▴ 170
1
vote
2
replies
788
views
Filter out pct.2 <0.5
findallmarker
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 360
2
votes
2
replies
1.5k
views
Using Entrez to download Supplementary files in GEO entry via command line?
bash command-line entrez
updated 2.6 years ago by 45k • written 2.6 years ago by ▴ 30
1
vote
1
reply
936
views
DMRcaller Min. Reads per Cytosine
wgbs bisulfite DMRcaller
updated 2.6 years ago by ★ 3.1k • written 2.6 years ago by • 0
122,013 results • Page 294 of 2441
Recent Votes
Answer: 1 vs 1 DEG analysis in scrna seq data
Comment: installation of package ‘DESeq2’ had non-zero exit status
Answer: Recommendations for 200 SNP markers genotyping
Comment: Reasonable number of SNPs in a bacterial genome.
The Biostar Handbook. A bioinformatics e-book for beginners.
Genome Assembly QC from BAM files
Answer: Scaling RNA-Seq data before clustering?
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Popular Question to firestar ★ 1.7k
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Recent Replies
Answer: 1 vs 1 DEG analysis in scrna seq data by ATpoint 89k
The only option you have is to treat every single cell as a replicate. That has the obvious downside that any effect can be a donor-unique …
Answer: GUI commercial software for 10x single cell gene expression analysis by firestar ★ 1.7k
An open-source option: [kana](https://www.kanaverse.org/kana/).
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
Yes, we plan to make English the primary language of the Brave UI.
Comment: Reasonable number of SNPs in a bacterial genome. by michael.ante ★ 4.0k
If your bacterial species is a (human) pathogen, you might want to check outbreak analysis papers of that species. In general, you find t…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space? by lieven.sterck 16k
ok, missed that ... in any case that should not happen indeed. How did you determine that the files are not equal? I can indeed also see t…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Ram 45k
Do you have a plan to make an English version of the UI?
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
This can visualize the parameters of the generated workflow, software, and scripts, and manage the docker process of the script, software, …
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by ATpoint 89k
Can you summarize in one sentence what the use case is? Is this a workflow manager?
Comment: Pseudogene - scarce info by ATpoint 89k
This reminds me strongly on my "masters" courses (doesn't deserve that name tbf). "Here is some poorly-described project with little to no …
Answer: scVI vs Harmony, which is better for cell type based clustering in brain tissue? by ATpoint 89k
There is no "better" is my experience. It always depends on the dataset. Try both and integrate your biological knowledge to decide which m…
Comment: DESeq2 on metagenome KO counts by Aleksandra ▴ 190
I just wrote that I misunderstood your initial question.
Comment: DESeq2 on metagenome KO counts by Aleksandra ▴ 190
What exactly did I not get?
Comment: Interpreting genomic features distribution for CUT&RUN peaks by rfran010 ★ 1.7k
If I understand correctly, you see increased signal at TSS sites compared to control (taller peaks in browser). However, 92% of the 450 siS…
Comment: combine VCF from diploid reference/haplotypes for the same sample by cmdcolin ★ 4.3k
this question is a little similar to your previous question (https://www.biostars.org/p/9614638/). just as added info, here is a tool calle…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space? by aj123 ▴ 130
As mentioned above, I just got the raw fastq files from the ftp site listed.
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