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ncbi
•
reset
2
votes
3
replies
496
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio
cDNA
ensembldb
NCBI
5 months ago
R_Page
• 0
2
votes
5
replies
786
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
0
votes
0
replies
636
views
getGFFSet function CRASHES R session
getGFF
NCBI
biomartr
biomaRt
2.7 years ago
Matan G.
▴ 60
2
votes
4
replies
999
views
MakeOrgPackageFromNCBI SQL error
MakeOrgPackageFromNCBI
NCBI
SQL
AnnotationForge
updated 4.0 years ago by
James W. MacDonald
65k • written 4.0 years ago by
chefer
• 0
1
vote
5
replies
1.3k
views
Gene Ontology analysis
ontology
edger
limma
ncbi
organism package
updated 4.1 years ago by
Gordon Smyth
50k • written 4.1 years ago by
babak.loghmani
▴ 20
0
votes
4
replies
2.2k
views
Rsubread function buildindex cannot handle the GRCh38.p7 reference from NCBI
rsubread
ncbi
GRCh38
hg38
updated 7.5 years ago by
Wei Shi
★ 3.6k • written 7.5 years ago by
jan.soderman
• 0
0
votes
0
replies
1.4k
views
Search SRA based on BioSample Attributes
ncbi
sra
search
8.3 years ago
massacomgrao
• 0
8
votes
7
replies
3.5k
views
Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi
refseq
maketxdbfromgff
fetchExtendedChromInfoFromUCSC
genomeinfodb
updated 8.3 years ago by
Hervé Pagès
16k • written 8.3 years ago by
gokcen.eraslan
▴ 10
2
votes
2
replies
3.2k
views
How to Normalize the Microarray Data Obtained from ncbi?
microarray
normalization
ncbi
updated 9.0 years ago by
James W. MacDonald
65k • written 9.0 years ago by
pankajnarula84
▴ 20
0
votes
1
reply
1.3k
views
.getNcbiURL returns old NCBI url ?
annotate
ncbi
url
9.3 years ago
reuma
• 0
10 results • Page
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Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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Rory Stark
★ 5.2k
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tangming2005
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Ian D.
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