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refseq
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912
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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
3.6 years ago
heiko_kin
▴ 60
0
votes
0
replies
572
views
Conversion of RefSeq data to chromosomal position
RefSeq
Chromosome
Mutalyzer
4.3 years ago
heiko_kin
▴ 60
0
votes
5
replies
2.1k
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 4.5 years ago by
Michael Love
42k • written 4.5 years ago by
holmkn
• 0
1
vote
3
replies
2.9k
views
ENSEBL gene_ID in edgeR analysis
edgeR
ENEMBL
RefSeq
updated 5.4 years ago by
Gordon Smyth
51k • written 5.4 years ago by
mzillur
• 0
6
votes
7
replies
2.6k
views
makeTxDbFromUCSC fails to download refLink table
genomicfeatures
maketxdbfromucsc
refseq
updated 8.0 years ago by
Hervé Pagès
16k • written 8.0 years ago by
Sebastien Vigneau
▴ 10
8
votes
7
replies
3.7k
views
Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi
refseq
maketxdbfromgff
fetchExtendedChromInfoFromUCSC
genomeinfodb
updated 8.5 years ago by
Hervé Pagès
16k • written 8.5 years ago by
gokcen.eraslan
▴ 10
2
votes
2
replies
2.8k
views
using the "promoters" function with an "OrganismDb" to generate "GRanges" with "REFSEQ" rather than UCSC gene names
promoter
granges
refseq
ucsc
organismdb
updated 8.7 years ago by
Robert Castelo
★ 3.3k • written 8.7 years ago by
efoss
▴ 10
4
votes
1
reply
3.8k
views
getting the longest transcript by gene from Refseq
refseq
annotationhub
updated 8.8 years ago by
Martin Morgan
25k • written 8.8 years ago by
dalloliogm
▴ 50
2
votes
2
replies
1.7k
views
customProDB: issues getting dbSNP data for human (hg19)
customprodb
dbsnp
refseq
varianttools
updated 9.1 years ago by
xiaojing.wang
▴ 50 • written 9.1 years ago by
kristenbeck527
• 0
9 results • Page
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Comment: 'path' must be string
by
James W. MacDonald
66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string
by
cpierce2
• 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest
by
Robert
• 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta
by
Guido Hooiveld
★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta
by
Michael Love
42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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Lluís Revilla Sancho
▴ 730
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to
maltethodberg
▴ 180
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to
Michael Love
42k
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Leonardo Collado Torres
★ 1.1k
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Gordon Smyth
51k
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