Showing : ncbi • reset
2
votes
3
replies
1.2k
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio cDNA ensembldb NCBI
2.1 years ago R_Page • 0
4
votes
6
replies
3.8k
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio convert ensembldb NCBI
updated 15 months ago by • 0 • written 2.2 years ago by • 0
0
votes
0
replies
1.0k
views
getGFFSet function CRASHES R session
getGFF NCBI biomartr biomaRt
4.4 years ago Matan G. ▴ 60
2
votes
4
replies
1.6k
views
MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
1
vote
5
replies
2.1k
views
Gene Ontology analysis
ontology edger limma ncbi organism package
updated 5.8 years ago by 53k • written 5.8 years ago by ▴ 20
0
votes
4
replies
2.9k
views
Rsubread function buildindex cannot handle the GRCh38.p7 reference from NCBI
rsubread ncbi GRCh38 hg38
updated 9.2 years ago by ★ 3.6k • written 9.2 years ago by • 0
0
votes
0
replies
1.9k
views
Search SRA based on BioSample Attributes
ncbi sra search
10.0 years ago massacomgrao • 0
8
votes
7
replies
4.8k
views
Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi refseq maketxdbfromgff fetchExtendedChromInfoFromUCSC genomeinfodb
updated 10.0 years ago by 16k • written 10.0 years ago by ▴ 10
2
votes
2
replies
4.1k
views
How to Normalize the Microarray Data Obtained from ncbi?
microarray normalization ncbi
updated 10.7 years ago by 68k • written 10.7 years ago by ▴ 20
0
votes
1
reply
1.6k
views
.getNcbiURL returns old NCBI url ?
annotate ncbi url
11.1 years ago reuma • 0
10 results • Page 1 of 1
Recent ...
Replies
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
I updated the above answer today.
Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Comment: Question about the filterByExpr function inputs in edgeR by mohammedtoufiq91 ▴ 10
@gordonsmyth Noted, thank you very much.
Votes
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
Comment: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
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