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Showing :
makeTxDbFromGff
•
reset
2
votes
2
replies
1.5k
views
Problem with MakeTxDbFromGFF
makeTxDbFromGff
2.1 years ago
stacy.genovese
• 0
3
votes
4
replies
3.6k
views
Saving and retrieving TxDB object
makeTxDBFromGFF
EISA
updated 4.6 years ago by
James W. MacDonald
68k • written 4.6 years ago by
nishanthemje
• 0
0
votes
0
replies
1.8k
views
error with makeTxDbFromGFF
genomicfeatures
gff
custom genome
makeTxDbFromGFF
makeTxDbFromGRanges
5.9 years ago
xvazquezc
• 0
0
votes
1
reply
1.5k
views
Error in .merge_transcript_parts(transcripts)
maketxdbfromgff
6.4 years ago
csijcs
• 0
0
votes
2
replies
2.7k
views
makeTxDbFromGFF errors too many NAs and make.splicings
maketxdbfromgff
limma
updated 6.5 years ago by
Hervé Pagès
16k • written 6.5 years ago by
Karl Lundén
▴ 20
0
votes
1
reply
1.7k
views
makeTxDbFromGFF error "stop codons that cannot be mapped to an exon"
genomicfeatures
txdb
maketxdbfromgff
updated 6.7 years ago by
daniel.vantwisk
▴ 50 • written 6.7 years ago by
marisa.e.miller
• 0
0
votes
0
replies
1.1k
views
Error using the makeTxDbFromGFF
maketxdbfromgff
7.1 years ago
bright602
• 0
0
votes
1
reply
4.4k
views
create a txdb using makeTxDbFromGFF
bioconductor
txdb
maketxdbfromgff
7.3 years ago
Nader.Aryamanesh
• 0
0
votes
3
replies
4.2k
views
makeTxDbFromGFF Error: subscript contains NAs
genomicfeatures
granges
maketxdbfromgff
updated 7.6 years ago by
Hervé Pagès
16k • written 7.7 years ago by
marc_bes
• 0
1
vote
2
replies
1.3k
views
Error while using GenomicFeatures package
genomicfeatures
maketxdbfromgff
updated 8.1 years ago by
Hervé Pagès
16k • written 8.1 years ago by
TFony
▴ 10
3
votes
2
replies
2.5k
views
makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF)
genomicfeatures
gtf
maketxdbfromgff
iGenome
updated 8.4 years ago by
Martin Morgan
25k • written 8.4 years ago by
Marlin
▴ 20
1
vote
2
replies
1.6k
views
mRNA start used instead of gene start in makeTxDbFromGFF
maketxdbfromgff
genomicfeatures
updated 8.9 years ago by
Hervé Pagès
16k • written 8.9 years ago by
TimothéeFlutre
▴ 80
4
votes
2
replies
1.6k
views
distinguish DataSource from Provider and ProviderVersion in makeTxDbPackage
genomicfeatures
txdb
maketxdbfromgff
metadata
updated 8.9 years ago by
Valerie Obenchain
★ 6.8k • written 8.9 years ago by
TimothéeFlutre
▴ 80
0
votes
5
replies
2.0k
views
makeTxDbFromGFF returns empty object
genomicfeatures
txdb
maketxdbfromgff
8.9 years ago
TimothéeFlutre
▴ 80
0
votes
0
replies
1.1k
views
Annotation missing when using makeTxDbFromGFF
makeTxDbFromGFF
9.1 years ago
Udi Landau
▴ 30
8
votes
7
replies
4.2k
views
Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi
refseq
maketxdbfromgff
fetchExtendedChromInfoFromUCSC
genomeinfodb
updated 9.2 years ago by
Hervé Pagès
16k • written 9.2 years ago by
gokcen.eraslan
▴ 10
0
votes
7
replies
2.2k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures
maketxdbfromgff
tx_type
gtf
updated 9.3 years ago by
Hervé Pagès
16k • written 9.3 years ago by
Karolin Wiedemann
• 0
0
votes
0
replies
1.3k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures
maketxdbfromgff
tx_type
gtf
9.3 years ago
Karolin Wiedemann
• 0
0
votes
4
replies
2.3k
views
MakeTxDbFromGFF creates empty object
maketxdbfromgff
updated 9.3 years ago by
Hervé Pagès
16k • written 9.3 years ago by
rebecca.halbach
• 0
0
votes
7
replies
2.7k
views
makeTxDbFromGFF yields an empty TxDb
annotation
maketxdbfromgff
genomicfeatures
9.4 years ago
José Luis Lavín
▴ 10
0
votes
2
replies
2.5k
views
makeTxDbpackage after makeTxDbfromGFF --> Error in spc[[2]] : subscript out of bounds
gtf
TxDb
maketxdbfromgff
updated 9.8 years ago by
Hervé Pagès
16k • written 9.8 years ago by
yacine.badis
• 0
0
votes
2
replies
2.3k
views
makeTxDbFromGFF not capturing/displaying 'gene' records from GFF3 file.
genomicfeatures
makeTxDbFromGFF
updated 9.9 years ago by
Hervé Pagès
16k • written 9.9 years ago by
pterry
• 0
22 results • Page
1 of 1
Recent ...
Replies
Comment: DiffBind custom normalization factor
by
Abbie
• 0
Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…
Answer: CpGs with genomic positions greater than the chromosome size in EPICv2?
by
James W. MacDonald
68k
All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…
Comment: Using TPM from tximport of Salmon output for singscore
by
Kent
• 0
Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…
Comment: Using TPM from tximport of Salmon output for singscore
by
Michael Love
43k
For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…
Comment: DESeq2 model - How to test case/control time course model when taking account wi
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43k
I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …
Votes
clusterProfiler-GO enrichment Error
A: Machine learning in R book
Data preparation and Machine learning on time course RNAseq data
Data preparation and Machine learning on time course RNAseq data
Answer: Use of org.Rn.eg.db with GRCr8 reference genome
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