Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
Showing : questions
0
votes
0
replies
177
views
different protocols for rapid nanopore sequencing starting from solid tumor
solid tumor nanopore oxford sequencing
updated 9 weeks ago by 142k • written 9 weeks ago by 4.2k
0
votes
0
replies
174
views
Questions regarding Boundary Conditions for Adaptive Sequencing for Oxford Nanopore
adaptive sampling nanopore oxford sequencing
9 weeks ago by LauferVA 4.2k
2
votes
7
replies
726
views
Selecting query format for repeated calls to NCBI's API
NCBI esummary elink API efetch
updated 7 weeks ago by 142k • written 11 weeks ago by 4.2k
0
votes
5
replies
430
views
Linking metadata in non-Pubmed Commons indexed journal articles to records housed by NCBI
NCBI Entrez SRA Journal Metadata
11 weeks ago by LauferVA 4.2k
2
votes
8
replies
1.0k
views
HGVS Nomenclature of Multiple Indels found in Cis
Nomenclature HGVS
updated 11 weeks ago by ▴ 560 • written 5 months ago by 4.2k
0
votes
1
reply
365
views
Software for Spatial Transcriptomic data [NanoString; Visium]?
NanoString Visium Spatial-Transcriptomics 10X
5 months ago by LauferVA 4.2k
1
vote
4
replies
611
views
Indexing pubmed articles by data available?
search data pubmed query
6 months ago by LauferVA 4.2k
0
votes
0
replies
355
views
Current landscape of approaches to scRNA-seq with nanopore sequencers?
scRNA-seq nanopore single-cell
7 months ago by LauferVA 4.2k
3
votes
2
replies
516
views
Scanning for ultra-hot topics in science via pubmed, or using other tools
growth pubmed
7 months ago by LauferVA 4.2k
3
votes
4
replies
616
views
Whole transcriptome analysis nominated primarily miRNA-related pathways. Advice?
miRNA RNA-seq QC GSEA
9 months ago by LauferVA 4.2k
1
vote
6
replies
834
views
cBioPortal data with negative log2(FPKM + 1) values
FPKM cBioPortal
10 months ago by LauferVA 4.2k
0
votes
0
replies
305
views
Is anyone aware of a function that will create a MultiAssayExperiment() based on the structure of flat files?
processing File MultiAssayExperiment Automation
10 months ago by LauferVA 4.2k
5
votes
2
replies
822
views
Tools for sentiment analysis that have been vetted on pubmed abstracts
sentiment-analysis pubmed Python R
updated 10 months ago by 43k • written 10 months ago by 4.2k
8
votes
9
replies
1.8k
views
6 follow
Advantages of install.packages() versus BiocManager::install()
R bioconductor
10 months ago by LauferVA 4.2k
2
votes
1
reply
499
views
Choosing the right batch effect control algorithm for bulk RNA-seq data meta-analysis
PEER SVA RUV RNA-seq
updated 10 months ago by ★ 2.9k • written 11 months ago by 4.2k
0
votes
0
replies
509
views
What are the existing proposals for how to approach genomic coordinates in a pangenome reference environment?
coordinates pangenome genomic
11 months ago by LauferVA 4.2k
0
votes
0
replies
468
views
Different alternatives for downloading GWAS summary statistics en masse
GWAS
11 months ago by LauferVA 4.2k
1
vote
0
replies
352
views
List of Ongoing and Planned Long Read Sequencing studies?
long-read-sequencing third-generation
updated 13 months ago by 43k • written 13 months ago by 4.2k
1
vote
2
replies
603
views
Clinical Informatics Tool like DAVID
informatics UMLS annotation clinical SNOMED
updated 16 months ago by 142k • written 16 months ago by 4.2k
0
votes
0
replies
303
views
Clinical Informatics - Labelling ICD-10 codes with desired annotations
i3b3 SNOMED UMLS
16 months ago by LauferVA 4.2k
1
vote
7
replies
1.7k
views
Tool to download all PDFs associated with results to a pubmed query?
eUtils NCBI pubmed entrez
updated 16 months ago by ▴ 290 • written 17 months ago by 4.2k
0
votes
0
replies
510
views
Best options for tools going from (complex) substitution name to sequence and/or from sequence to complex substitution name
cDNA SNV Sequence HGVS Fasta
20 months ago by LauferVA 4.2k
2
votes
2
replies
602
views
Simplest solution to generate nucleotide sequence with and without a variant (all in one)
context nucleotide
20 months ago by LauferVA 4.2k
4
votes
3
replies
911
views
Mapping GeneSymbol plus cDNA position to a Chr:Position ... without transcript ID.
annotation splice site transcript build
21 months ago by LauferVA 4.2k
0
votes
0
replies
363
views
Drilling down to the right samples in COSMIC
cosmic mutational PCAWG SBS tumor signature
21 months ago by LauferVA 4.2k
1
vote
0
replies
324
views
Finding Specific Types of Data for Cancer Studies
TCGA GDC Cancer Entrez GEO
21 months ago by LauferVA 4.2k
3
votes
9
replies
1.6k
views
Extract nucleotide sequence from a RefSeq Transcript ID
nucleotide refseq transcript sequence entrez
21 months ago by LauferVA 4.2k
4
votes
3
replies
1.5k
views
Tips and tricks for using ImageJ
imageJ macros automation
updated 22 months ago by ▴ 910 • written 22 months ago by 4.2k
0
votes
0
replies
396
views
Different types of repeat elements in eukaryotic genomes
repeat sequence genome graph STR satellite
2.2 years ago by LauferVA 4.2k
5
votes
6
replies
1.2k
views
Existing tutorials using Docker to set up and run any type of NGS workflow?
docker NGS pipeline automate workflow
2.2 years ago by LauferVA 4.2k
0
votes
0
replies
471
views
Running / Debugging Encode-DCC RNA-seq pipeline
RNA-seq Encode
2.4 years ago by LauferVA 4.2k
4
votes
5
replies
1.3k
views
6 follow
Is there a database of bioinformatics tools & databases?
ebi entrez
updated 15 months ago by 43k • written 2.4 years ago by 4.2k
0
votes
2
replies
1.9k
views
In a locuszoom file, what does a column title "pp" contain?
fineMap locuszoom pp
updated 2.1 years ago by 43k • written 9.3 years ago by 4.2k
1
vote
2
replies
1.3k
views
Where to learn about getting a few thousand genomes sequenced?
budget sequencing
updated 15 months ago by 43k • written 9.0 years ago by 4.2k
0
votes
1
reply
774
views
Is there a database or catalog of the proteins secreted through the Type 3 Secretion System available?
Microbiology Metagenomics
3.8 years ago by LauferVA 4.2k
0
votes
0
replies
806
views
Programmatically kicking off cellranger based on fastq folder format
10x fastq cellranger scRNA-seq
3.9 years ago by LauferVA 4.2k
0
votes
7
replies
3.9k
views
Locus Zoom Issuing "No valid markers in VCF file" on a VCF created in Plink 1.9
plink2 VCF LocusZoom
updated 4.9 years ago by • 0 • written 8.0 years ago by 4.2k
1
vote
1
reply
1.1k
views
Go Partition Database or another like tool
gene ontology hierarchy GO DAG
4.9 years ago by LauferVA 4.2k
2
votes
0
replies
967
views
Options for labeling pathways with higher-order ontologies
pathways gene ontology KEGG Biocarta GO
4.9 years ago by LauferVA 4.2k
15
votes
4
replies
9.1k
views
Selection of a "suggestive" level of association in a GWAS study
association GWAS statistics
11 months ago by LauferVA 4.2k
5
votes
2
replies
2.6k
views
How to print locuszoom plot at 300 dpi or greater
locuszoom publication resolution figures
updated 5.7 years ago by 43k • written 8.2 years ago by 4.2k
3
votes
8
replies
1.4k
views
Function returning % trait explained for a SNP given effect size, MAF, prevalence, etc. for a complex trait
risk score genetic variance explained R
updated 5.8 years ago by 11k • written 5.8 years ago by 4.2k
0
votes
2
replies
1.8k
views
High-quality visualization of GSEA data illustrating relationships between multiple pathways.
GSEA figure
6.2 years ago by LauferVA 4.2k
10
votes
6
replies
5.0k
views
Varying Sample Size vs Read Depth, Read Length, and Single vs Paired end to optimize DE analysis of RNA-Seq
RNA-Seq read-depth mapping
updated 21 months ago by 43k • written 8.4 years ago by 4.2k
1
vote
3
replies
1.8k
views
Conditioning association summary statistics using a correlation matrix.
conditional analysis imputation fine-mapping
6.4 years ago by LauferVA 4.2k
1
vote
2
replies
1.4k
views
Are WGS cohorts with large numbers of global participants (larger than 1kg) publicly available?
WGS 1000 genomes 1kg
6.5 years ago by LauferVA 4.2k
4
votes
4
replies
3.2k
views
Best implementation of negative binomial association test for GWAS data?
statistics negative binomial GWAS association
updated 2.1 years ago by 43k • written 9.3 years ago by 4.2k
3
votes
1
reply
4.0k
views
What makes assigning A/T and G/C SNPs to a strand unreliable if MAF is not near 0.5?
A/T G/C SNP Strand
6.8 years ago by LauferVA 4.2k
5
votes
3
replies
2.4k
views
Methods of classifying, not detecting, structural variation?
SV-annotation-algorithm Structural-variation
updated 21 months ago by 43k • written 8.4 years ago by 4.2k
0
votes
0
replies
1.3k
views
Do imputed variants tend to show weaker, stronger, or the same average association compared to genotyped variants
imputation genotyped SNP GWAS
6.9 years ago by LauferVA 4.2k
86 results • Page 1 of 2
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6