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4
votes
1
answer
709
views
1
answer
Why does Homo.sapiens import TxDb.Hsapiens.UCSC.hg19.knownGene instead of TxDb.Hsapiens.UCSC.hg38.knownGene?
annotation homo.sapiens txdb written 2.3 years ago by enricoferrero • 570 • updated 2.3 years ago by Valerie Obenchain ♦♦ 6.5k
0
votes
1
answer
501
views
1
answer
How to find index position of desired feature_by in TxDb granges?
genomicfeatures granges txdb written 2.4 years ago by vinod.acear • 20 • updated 2.4 years ago by Martin Morgan ♦♦ 22k
2
votes
1
answer
467
views
1
answer
How to rename seqlevels style (I, II, III, ...,XVI, Mito to 1,2,3,...16, 17.) in txdb granges?
granges grangeslist txdb renameseqlevels mapseqlevels written 2.4 years ago by vinod.acear • 20
1
vote
1
answer
579
views
1
answer
problem creating txdb object and bsgenome for solanum pennellii
bsgenome promoter txdb written 2.5 years ago by sekawaiwai2006 • 20 • updated 2.5 years ago by Martin Morgan ♦♦ 22k
0
votes
1
answer
593
views
1
answer
extracting promoter region error for A.thaliana
txdb promoter region written 2.5 years ago by sekawaiwai2006 • 20 • updated 2.5 years ago by Martin Morgan ♦♦ 22k
4
votes
1
answer
940
views
1
answer
How to get Genomic feature in txdb format from biomart for sacCer2 (EF4) assembly?
biomart genomicfeatures txdb maketxdbfrombiomart written 2.7 years ago by vinod.acear • 20 • updated 2.7 years ago by James W. MacDonald ♦ 46k
0
votes
3
answers
452
views
3
answers
threeUTRsByTranscript appears to not work after invoking setter seqlevelsStyle
seqlevels txdb threeutrsbytranscript seqlevelsstyle written 2.8 years ago by Robert K. Bradley • 40
0
votes
2
answers
550
views
2
answers
possible conflict between renameSeqLevels (TxDb) and isActiveSeq (TxDb)
genomicfeatures bug txdb written 2.9 years ago by Robert K. Bradley • 40
0
votes
2
answers
386
views
2
answers
renamed seqlevels (TxDb) don't persist through a save-load cycle
genomicfeatures txdb written 2.9 years ago by Robert K. Bradley • 40
2
votes
2
answers
844
views
2
answers
Working with Arabidopsis Databases
bsgenome biomart getpromoterseq txdb written 3.0 years ago by oliwindram • 10
0
votes
1
answer
1.0k
views
1
answer
makeTxDbpackage after makeTxDbfromGFF --> Error in spc[[2]] : subscript out of bounds
gtf txdb maketxdbfromgff written 3.1 years ago by yacine.badis • 0 • updated 3.1 years ago by Hervé Pagès ♦♦ 13k
7
votes
6
answers
744
views
6
answers
Setting package name in makeTxDbPackage
genomicfeatures txdb written 3.2 years ago by Diego Diez • 730 • updated 3.2 years ago by Marc Carlson • 7.2k
2
votes
1
answer
621
views
1
answer
Setting genome information on a TxDb object
genomicfeatures txdb written 3.2 years ago by Diego Diez • 730 • updated 3.2 years ago by Hervé Pagès ♦♦ 13k
3
votes
1
answer
1.7k
views
1
answer
Installation of TxDb.Hsapiens.UCSC.hg19.knownGene fails.
biocinstaller installation txdb written 3.5 years ago by Laurent Gatto ♦ 980 • updated 3.5 years ago by Marc Carlson • 7.2k
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