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questions
0
votes
0
replies
324
views
different protocols for rapid nanopore sequencing starting from solid tumor
solid
tumor
nanopore
oxford
sequencing
updated 11 months ago by
GenoMax
149k • written 11 months ago by
LauferVA
4.5k
0
votes
0
replies
285
views
Questions regarding Boundary Conditions for Adaptive Sequencing for Oxford Nanopore
adaptive
sampling
nanopore
oxford
sequencing
11 months ago by
LauferVA
4.5k
2
votes
7
replies
1.3k
views
Selecting query format for repeated calls to NCBI's API
NCBI
esummary
elink
API
efetch
updated 10 months ago by
GenoMax
149k • written 12 months ago by
LauferVA
4.5k
0
votes
5
replies
779
views
Linking metadata in non-Pubmed Commons indexed journal articles to records housed by NCBI
NCBI
Entrez
SRA
Journal
Metadata
12 months ago by
LauferVA
4.5k
2
votes
10
replies
1.8k
views
HGVS Nomenclature of Multiple Indels found in Cis
Nomenclature
HGVS
updated 9 months ago by
Ram
44k • written 14 months ago by
LauferVA
4.5k
0
votes
1
reply
599
views
Software for Spatial Transcriptomic data [NanoString; Visium]?
NanoString
Visium
Spatial-Transcriptomics
10X
14 months ago by
LauferVA
4.5k
1
vote
4
replies
889
views
Indexing pubmed articles by data available?
search
data
pubmed
query
15 months ago by
LauferVA
4.5k
0
votes
0
replies
471
views
Current landscape of approaches to scRNA-seq with nanopore sequencers?
scRNA-seq
nanopore
single-cell
17 months ago by
LauferVA
4.5k
3
votes
2
replies
723
views
Scanning for ultra-hot topics in science via pubmed, or using other tools
growth
pubmed
17 months ago by
LauferVA
4.5k
3
votes
4
replies
929
views
Whole transcriptome analysis nominated primarily miRNA-related pathways. Advice?
miRNA
RNA-seq
QC
GSEA
19 months ago by
LauferVA
4.5k
1
vote
6
replies
1.3k
views
cBioPortal data with negative log2(FPKM + 1) values
FPKM
cBioPortal
19 months ago by
LauferVA
4.5k
0
votes
0
replies
422
views
Is anyone aware of a function that will create a MultiAssayExperiment() based on the structure of flat files?
processing
File
MultiAssayExperiment
Automation
19 months ago by
LauferVA
4.5k
5
votes
2
replies
1.4k
views
Tools for sentiment analysis that have been vetted on pubmed abstracts
sentiment-analysis
pubmed
Python
R
updated 20 months ago by
Ram
44k • written 20 months ago by
LauferVA
4.5k
8
votes
9
replies
2.8k
views
6 follow
Advantages of install.packages() versus BiocManager::install()
R
bioconductor
19 months ago by
LauferVA
4.5k
2
votes
1
reply
731
views
Choosing the right batch effect control algorithm for bulk RNA-seq data meta-analysis
PEER
SVA
RUV
RNA-seq
updated 20 months ago by
Papyrus
★ 3.0k • written 20 months ago by
LauferVA
4.5k
0
votes
0
replies
649
views
What are the existing proposals for how to approach genomic coordinates in a pangenome reference environment?
coordinates
pangenome
genomic
20 months ago by
LauferVA
4.5k
0
votes
0
replies
638
views
Different alternatives for downloading GWAS summary statistics en masse
GWAS
20 months ago by
LauferVA
4.5k
1
vote
0
replies
435
views
List of Ongoing and Planned Long Read Sequencing studies?
long-read-sequencing
third-generation
updated 23 months ago by
Ram
44k • written 23 months ago by
LauferVA
4.5k
1
vote
2
replies
783
views
Clinical Informatics Tool like DAVID
informatics
UMLS
annotation
clinical
SNOMED
updated 2.1 years ago by
GenoMax
149k • written 2.1 years ago by
LauferVA
4.5k
0
votes
0
replies
394
views
Clinical Informatics - Labelling ICD-10 codes with desired annotations
i3b3
SNOMED
UMLS
2.1 years ago by
LauferVA
4.5k
1
vote
7
replies
2.7k
views
Tool to download all PDFs associated with results to a pubmed query?
eUtils
NCBI
pubmed
entrez
updated 2.1 years ago by
jena
▴ 320 • written 2.2 years ago by
LauferVA
4.5k
0
votes
0
replies
655
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
2.4 years ago by
LauferVA
4.5k
2
votes
2
replies
813
views
Simplest solution to generate nucleotide sequence with and without a variant (all in one)
context
nucleotide
2.4 years ago by
LauferVA
4.5k
4
votes
3
replies
1.2k
views
Mapping GeneSymbol plus cDNA position to a Chr:Position ... without transcript ID.
annotation
splice
site
transcript
build
2.5 years ago by
LauferVA
4.5k
0
votes
0
replies
483
views
Drilling down to the right samples in COSMIC
cosmic
mutational
PCAWG
SBS
tumor
signature
2.5 years ago by
LauferVA
4.5k
1
vote
0
replies
454
views
Finding Specific Types of Data for Cancer Studies
TCGA
GDC
Cancer
Entrez
GEO
2.5 years ago by
LauferVA
4.5k
3
votes
9
replies
2.0k
views
Extract nucleotide sequence from a RefSeq Transcript ID
nucleotide
refseq
transcript
sequence
entrez
2.5 years ago by
LauferVA
4.5k
4
votes
3
replies
1.9k
views
Tips and tricks for using ImageJ
imageJ
macros
automation
updated 2.6 years ago by
Jeremy
▴ 930 • written 2.6 years ago by
LauferVA
4.5k
0
votes
0
replies
524
views
Different types of repeat elements in eukaryotic genomes
repeat
sequence
genome
graph
STR
satellite
3.0 years ago by
LauferVA
4.5k
5
votes
6
replies
1.6k
views
Existing tutorials using Docker to set up and run any type of NGS workflow?
docker
NGS
pipeline
automate
workflow
3.0 years ago by
LauferVA
4.5k
0
votes
0
replies
568
views
Running / Debugging Encode-DCC RNA-seq pipeline
RNA-seq
Encode
3.2 years ago by
LauferVA
4.5k
4
votes
5
replies
1.7k
views
6 follow
Is there a database of bioinformatics tools & databases?
ebi
entrez
updated 2.0 years ago by
Ram
44k • written 3.2 years ago by
LauferVA
4.5k
0
votes
2
replies
2.0k
views
In a locuszoom file, what does a column title "pp" contain?
fineMap
locuszoom
pp
updated 2.9 years ago by
Ram
44k • written 10.1 years ago by
LauferVA
4.5k
1
vote
2
replies
1.4k
views
Where to learn about getting a few thousand genomes sequenced?
budget
sequencing
updated 2.0 years ago by
Ram
44k • written 9.8 years ago by
LauferVA
4.5k
0
votes
1
reply
880
views
Is there a database or catalog of the proteins secreted through the Type 3 Secretion System available?
Microbiology
Metagenomics
4.6 years ago by
LauferVA
4.5k
0
votes
0
replies
898
views
Programmatically kicking off cellranger based on fastq folder format
10x
fastq
cellranger
scRNA-seq
4.7 years ago by
LauferVA
4.5k
1
vote
8
replies
4.4k
views
Locus Zoom Issuing "No valid markers in VCF file" on a VCF created in Plink 1.9
plink2
VCF
LocusZoom
updated 18 days ago by
alessandrotestori7
▴ 420 • written 8.7 years ago by
LauferVA
4.5k
1
vote
1
reply
1.3k
views
Go Partition Database or another like tool
gene ontology
hierarchy
GO
DAG
5.6 years ago by
LauferVA
4.5k
2
votes
0
replies
1.1k
views
Options for labeling pathways with higher-order ontologies
pathways
gene ontology
KEGG
Biocarta
GO
5.6 years ago by
LauferVA
4.5k
15
votes
4
replies
10k
views
Selection of a "suggestive" level of association in a GWAS study
association
GWAS
statistics
20 months ago by
LauferVA
4.5k
5
votes
2
replies
2.8k
views
How to print locuszoom plot at 300 dpi or greater
locuszoom
publication
resolution
figures
updated 6.4 years ago by
Ram
44k • written 9.0 years ago by
LauferVA
4.5k
3
votes
8
replies
1.5k
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 6.6 years ago by
zx8754
12k • written 6.6 years ago by
LauferVA
4.5k
0
votes
2
replies
2.0k
views
High-quality visualization of GSEA data illustrating relationships between multiple pathways.
GSEA
figure
7.0 years ago by
LauferVA
4.5k
10
votes
6
replies
5.4k
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 2.5 years ago by
Ram
44k • written 9.2 years ago by
LauferVA
4.5k
1
vote
3
replies
2.0k
views
Conditioning association summary statistics using a correlation matrix.
conditional analysis
imputation
fine-mapping
7.2 years ago by
LauferVA
4.5k
1
vote
2
replies
1.6k
views
Are WGS cohorts with large numbers of global participants (larger than 1kg) publicly available?
WGS
1000 genomes
1kg
7.2 years ago by
LauferVA
4.5k
4
votes
4
replies
3.5k
views
Best implementation of negative binomial association test for GWAS data?
statistics
negative binomial
GWAS
association
updated 2.9 years ago by
Ram
44k • written 10.1 years ago by
LauferVA
4.5k
3
votes
1
reply
4.3k
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
7.6 years ago by
LauferVA
4.5k
5
votes
3
replies
2.6k
views
Methods of classifying, not detecting, structural variation?
SV-annotation-algorithm
Structural-variation
updated 2.5 years ago by
Ram
44k • written 9.2 years ago by
LauferVA
4.5k
0
votes
0
replies
1.4k
views
Do imputed variants tend to show weaker, stronger, or the same average association compared to genotyped variants
imputation
genotyped
SNP
GWAS
7.7 years ago by
LauferVA
4.5k
86 results • Page
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