Showing : NCBI • reset
8
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7
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3.4k
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Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi refseq maketxdbfromgff fetchExtendedChromInfoFromUCSC genomeinfodb
updated 8.3 years ago by 16k • written 8.3 years ago by ▴ 10
2
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4
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985
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MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI NCBI SQL AnnotationForge
updated 3.9 years ago by 65k • written 3.9 years ago by • 0
2
votes
2
replies
3.2k
views
How to Normalize the Microarray Data Obtained from ncbi?
microarray normalization ncbi
updated 8.9 years ago by 65k • written 9.0 years ago by ▴ 20
2
votes
5
replies
738
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio convert ensembldb NCBI
5 months ago j_denton • 0
2
votes
3
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474
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NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio cDNA ensembldb NCBI
4 months ago R_Page • 0
1
vote
5
replies
1.3k
views
Gene Ontology analysis
ontology edger limma ncbi organism package
updated 4.1 years ago by 50k • written 4.1 years ago by ▴ 20
0
votes
1
reply
1.2k
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.getNcbiURL returns old NCBI url ?
annotate ncbi url
9.3 years ago reuma • 0
0
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0
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627
views
getGFFSet function CRASHES R session
getGFF NCBI biomartr biomaRt
2.7 years ago Matan G. ▴ 60
0
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4
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2.2k
views
Rsubread function buildindex cannot handle the GRCh38.p7 reference from NCBI
rsubread ncbi GRCh38 hg38
updated 7.5 years ago by ★ 3.6k • written 7.5 years ago by • 0
0
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0
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1.4k
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Search SRA based on BioSample Attributes
ncbi sra search
8.2 years ago massacomgrao • 0
10 results • Page 1 of 1
Recent ...
Replies
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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