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121,961 results • Page 184 of 2440
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1
vote
3
replies
1.4k
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PMID multiple pdfs download using R
R PubMed
updated 22 months ago by 45k • written 22 months ago by ▴ 30
0
votes
1
reply
701
views
Bgen file not being opened by PRSice
prsice2 prsice
updated 22 months ago by 23k • written 22 months ago by • 0
1
vote
0
replies
2.1k
views
Convert Seurat object to anndata
anndata h5ad Seurat
22 months ago by nadammagdy ▴ 10
6
votes
9
replies
34k
views
8 follow
How To Get Chromosome Position Given Rs Number?
snp chromosome position
updated 22 months ago by 154k • written 11.9 years ago by • 0
0
votes
2
replies
1.3k
views
Dorado basecall: cryptic error with pod5 subset tool
dorado Nanopore ONT sequencing pod5
22 months ago by antoinefelden ▴ 60
0
votes
3
replies
957
views
filtering lowly expressed exons
dexseq deseq2
updated 22 months ago by 89k • written 22 months ago by ▴ 40
2
votes
6
replies
1.9k
views
Filter a BED file based on genome coordinates for gene names
BED GTF GFF
updated 22 months ago by 45k • written 22 months ago by • 0
3
votes
2
replies
793
views
Failed to open error: RNAseq Analysis
rna-seq
updated 22 months ago by 45k • written 22 months ago by • 0
0
votes
1
reply
725
views
Using GEO RNA seq datasets for retrieving gene expression and analysis in partek genomic suite
Genomic GEO suite
updated 22 months ago by 45k • written 22 months ago by • 0
4
votes
2
replies
7.8k
views
keep getting error while trying to convert Seurat object into a H5ad file
scRNA-seq Seurat
updated 20 months ago by 45k • written 22 months ago by ▴ 280
2
votes
3
replies
1.7k
views
Selecting a subset of MSigDB database for GSEA
fgsea clusterprofiler GSEA
22 months ago by Orange ▴ 30
1
vote
2
replies
1.2k
views
Quality control on imputed genotypes for GWAS / application of PGS
qc imputation plink regenie gwas
22 months ago by loy_loy ▴ 10
2
votes
2
replies
1.0k
views
improving genome sequence read depth and confidence by combining sequences from different SRA
transcriptome Genomics NGS
updated 22 months ago by ▴ 580 • written 23 months ago by • 0
1
vote
1
reply
633
views
Match variants for allele frequency, LD score, and other features
snp
22 months ago by Jautis ▴ 580
2
votes
6
replies
2.6k
views
need interpretations for the vg call output
vcf vg
22 months ago by Maxine ▴ 50
2
votes
4
replies
1.6k
views
Alternatives to snpflip to find ambigious and flipped snps
gwas plink snps snpflip
updated 22 months ago by 154k • written 22 months ago by • 0
0
votes
1
reply
983
views
pigeon make-seurat produces empty output
pigeon seurat isosequ PacBio
22 months ago by aj • 0
3
votes
0
replies
922
views
Herald: The Biostar Herald for Monday, November 13, 2023
herald
22 months ago by Biostar 3.6k
2
votes
5
replies
1.2k
views
Abyss results
assembly abyss
22 months ago by erikatatianacs • 0
1
vote
2
replies
945
views
Strange BUSCO selected sequences
BUSCO DNA
22 months ago by Pit • 0
2
votes
4
replies
2.0k
views
Error with numpy integer during Boruta analysis
ML numpy Boruta
updated 22 months ago by 45k • written 23 months ago by • 0
1
vote
8
replies
1.8k
views
DESEQ2 design in DESeqDataSetFromMatrix: cell and treatment
rna-seq deseq2
22 months ago by pingu77 ▴ 40
0
votes
1
reply
705
views
miRNA. Reads to long or to short
miRNA
updated 22 months ago by ★ 1.3k • written 22 months ago by • 0
1
vote
5
replies
1.4k
views
bcftools mipileup error: format error, unexpected A at line 1
bcftools
updated 22 months ago by ▴ 580 • written 22 months ago by ▴ 20
2
votes
11
replies
2.3k
views
Data preparation for a ML model
machine-learning RNA-Seq R python biomarkers
22 months ago by sil_bioinfo ▴ 60
0
votes
0
replies
778
views
GATK SelectVariants --remove-unused-alternates dropping real INDELs?
GATK
22 months ago by benformatics 4.2k
0
votes
0
replies
626
views
Blog: Using Long-read Sequencing Technology to Explore the Complex Structure of Transcripts
Nanopore PacBio long-read-sequencing sequencing complex-structure
22 months ago by Novogene ▴ 510
0
votes
0
replies
704
views
Blog: Uncovering Potential Therapeutic Targets for Drug Development through Single Cell Sequencing Techniques
immunotherapy therapeutic-targets drug-development rnaseq single-cell-sequencing
22 months ago by Novogene ▴ 510
0
votes
0
replies
784
views
Blog: Uncovering the Genetic Basis of Rare and Complex Diseases through Whole Genome Sequencing (WGS)
genome WGS illumina GWAS sequence
22 months ago by Novogene ▴ 510
0
votes
3
replies
1.2k
views
STAR GeneCounts for most genes are 0
STAR RNA-seq
updated 22 months ago by 45k • written 22 months ago by • 0
1
vote
1
reply
730
views
How to properly quantify gene expression of tandem duplicates from RNA-seq
pipeline illumina plants RNA-seq
updated 22 months ago by ★ 3.1k • written 22 months ago by • 0
2
votes
6
replies
1.6k
views
Burrows-Wheeler transform
Python BWT DNA
updated 22 months ago by 45k • written 22 months ago by • 0
0
votes
0
replies
638
views
News: Course: Genome Assembly using Oxford Nanopore Sequencing
Genome-Assembly Nanopore
updated 22 months ago by 45k • written 23 months ago by ★ 2.6k
0
votes
0
replies
606
views
News: Genemod - Lab Management Software
lab-management-software research
updated 22 months ago by 45k • written 23 months ago by • 0
0
votes
2
replies
923
views
Failed to download SRA vdbcache
SRA
22 months ago by Petesview ▴ 10
0
votes
2
replies
828
views
blastn Error: mdb_env_open: Cannot allocate memory
NCBI Blast
23 months ago by Mehmet ▴ 820
0
votes
1
reply
1.8k
views
Understanding GISTIC 2.0
gistic2.0
updated 22 months ago by 45k • written 23 months ago by • 0
0
votes
1
reply
607
views
Problem with BLAST
alignment BLAST
updated 23 months ago by ★ 30k • written 23 months ago by • 0
4
votes
4
replies
1.2k
views
bwa-mem2 error: skip or orientatioon FF
bwa-mem2
22 months ago by jiyoung ▴ 20
0
votes
1
reply
784
views
error uploading gct file to gsea
gsea
updated 22 months ago by ★ 1.3k • written 23 months ago by ▴ 30
3
votes
3
replies
1.3k
views
Why are there several gene expression files (for example, miRNA) in TCGA for one case?
Differential-gene-expression TCGA miRNA
updated 18 months ago by 45k • written 23 months ago by ▴ 260
7
votes
4
replies
2.8k
views
Effect of Bootstrapping/Gibbs Sampling in Salmon Counts
Gibbs Bootstrapping RNAseq Salmon Sampling
updated 22 months ago by ★ 8.3k • written 3.4 years ago by ▴ 20
1
vote
3
replies
1.6k
views
Conceptual question about open reading frames
DNA openreadingframe ORF RNA genes
updated 22 months ago by 20k • written 23 months ago by ▴ 40
0
votes
2
replies
909
views
Identifying a gene
1
updated 22 months ago by 5.1k • written 23 months ago by ▴ 10
0
votes
0
replies
587
views
Choosing power value in WGCNA
WGCNA GWENA
23 months ago by sleepystudent • 0
1
vote
2
replies
1.1k
views
featureCounts error???
featureCounts
updated 15 months ago by 45k • written 23 months ago by • 0
4
votes
4
replies
2.2k
views
trying to use the API for edirect tool (NCBI)
edirect NCBI API cluster
updated 23 months ago by 154k • written 23 months ago by ▴ 10
1
vote
4
replies
1.5k
views
RNAseq how to map Mouse+Virus Genome with STAR
STAR GTF RNA-seq fasta
updated 23 months ago by 154k • written 23 months ago by ▴ 250
3
votes
7
replies
2.2k
views
How much adapters is it ok to keep in my samples after RNA seq?
RNA-seq illumina adapters
updated 18 months ago by 45k • written 23 months ago by ▴ 160
2
votes
3
replies
1.6k
views
How to check if my sequence is DNA or Protein in BioPython?
genomics biopython fasta
updated 22 months ago by 22k • written 23 months ago by ▴ 750
121,961 results • Page 184 of 2440
Recent Votes
A: Which is the proper RNA-seq count table transformation to perform hierarchial cl
Answer: Differences between published differential gene expression results and own analy
Answer: If TPM is not comparable across cohorts, can it be used as the input for ML mode
Answer: If TPM is not comparable across cohorts, can it be used as the input for ML mode
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
sra-explorer : find SRA and FastQ download URLs in a couple of clicks
Comment: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
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Comment: Differences between published differential gene expression results and own analy by dsull ★ 7.7k
Honestly, those things shouldn't result in a considerable discrepancy. The largest difference will come from the post-processing & analysi…
Answer: Differences between published differential gene expression results and own analy by Ales ▴ 50
I second the comment about comparing the top 100 genes - if you see vastly different results, I would lean closer to examining protocols th…
Answer: Help interpreting BLASTn results and phylogenetic tree for genetics practical by Mensur Dlakic ★ 30k
I think what you are asking involves too much work for anyone to explain it in granular detail. But who knows, maybe there is a good soul o…
Answer: Differences between published differential gene expression results and own analy by yura.grabovska ▴ 830
When you say vastly different, what do you mean exactly? Does your top 100 up/down not match theirs at all?
Comment: Functional prediction for proteins of bacteria. by colindaven 8.0k
Have a look at tools like SnpEff or Ensembl VEP. Perhaps your bacterial sp is included.
Comment: Errors with RSEM/bowtie2 by Olivia • 0
Yes, I already made the transcriptome with these tools, and the CD-HIT-EST fasta file is the transcript file that I am using for RSEM. Then…
Comment: sra-explorer : find SRA and FastQ download URLs in a couple of clicks by Guilherme • 0
Oh, ok. It seems like NCBI stores the files in SRA format (thus needing conversion and database lookups by sra toolkit tools) and EBI store…
Comment: help with modkit on nanopore sequencing data. by andres.firrincieli 3.9k
On the DMR tutorial page, they retrieve Human CpG Islands from the UCSC Table Browser. You can do the same thing for Mouse CpG Islands. Hav…
Comment: After doublet detection in 10x scRNA-Seq data, there is still evidence of double by yura.grabovska ▴ 830
Yes but the problem is that biological knowledge is never fully encompasing. While I can say that a cell expressing CD45 alongside astrocyt…
Comment: DNA copy number blacklist for excluding common unreliable regions by yura.grabovska ▴ 830
Human genome, ideally hg38
Comment: Is Newbler still available for download by anweshaash • 0
Hello, I am wondering if you got access to the software or not. I am looking to use Newbler for my research and I contacted Roche too but t…
Comment: Errors with RSEM/bowtie2 by GenoMax 154k
> I have previously run Trinity with the Trimmomatic step as well as CD-HIT-EST. I assume you did the above to generate the transcriptome,…
Answer: With 10x Visum HD : How to map the barcode id to the barcode sequence ? by sacha ★ 2.5k
Got it https://kb.10xgenomics.com/hc/en-us/articles/115004506263-What-is-a-barcode-inclusion-list-formerly-barcode-whitelist
Comment: limmaFit error when comparing TCGA RNA-Seq data by vernonlim98 • 0
Thanks for the advice. Am still new to RNA seq and R programming in general, and will just do the analysis by myself.
Answer: The Biostar Handbook. A bioinformatics e-book for beginners. by Istvan Albert 103k
Update as of **August 2025**: The book now includes a new online course: [**FastTrack Bioinformatics 2025**][course] at no extra cost. Bio…
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