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refseq
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How can I translate NM_xxx.y:c.xxG>C mRNA sequences to corresponding NC_xxx.y:g.xxxC>G chromosomal coordinates?
refseq
Bioconductor
conversion
3.3 years ago
heiko_kin
▴ 60
0
votes
0
replies
489
views
Conversion of RefSeq data to chromosomal position
RefSeq
Chromosome
Mutalyzer
4.0 years ago
heiko_kin
▴ 60
0
votes
5
replies
1.8k
views
Changing Gene ID annotation style - working with Salmon output [NM...] and resulting count files are numeric-only IDs
tximport
Gene IDs
txdb
RefSeq
Salmon
updated 4.2 years ago by
Michael Love
41k • written 4.2 years ago by
holmkn
• 0
1
vote
3
replies
2.7k
views
ENSEBL gene_ID in edgeR analysis
edgeR
ENEMBL
RefSeq
updated 5.0 years ago by
Gordon Smyth
50k • written 5.0 years ago by
mzillur
• 0
6
votes
7
replies
2.5k
views
makeTxDbFromUCSC fails to download refLink table
genomicfeatures
maketxdbfromucsc
refseq
updated 7.7 years ago by
Hervé Pagès
16k • written 7.7 years ago by
Sebastien Vigneau
▴ 10
8
votes
7
replies
3.4k
views
Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi
refseq
maketxdbfromgff
fetchExtendedChromInfoFromUCSC
genomeinfodb
updated 8.2 years ago by
Hervé Pagès
16k • written 8.2 years ago by
gokcen.eraslan
▴ 10
2
votes
2
replies
2.5k
views
using the "promoters" function with an "OrganismDb" to generate "GRanges" with "REFSEQ" rather than UCSC gene names
promoter
granges
refseq
ucsc
organismdb
updated 8.3 years ago by
Robert Castelo
★ 3.1k • written 8.3 years ago by
efoss
▴ 10
4
votes
1
reply
3.7k
views
getting the longest transcript by gene from Refseq
refseq
annotationhub
updated 8.5 years ago by
Martin Morgan
25k • written 8.5 years ago by
dalloliogm
▴ 50
2
votes
2
replies
1.6k
views
customProDB: issues getting dbSNP data for human (hg19)
customprodb
dbsnp
refseq
varianttools
updated 8.7 years ago by
xiaojing.wang
▴ 50 • written 8.7 years ago by
kristenbeck527
• 0
9 results • Page
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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