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makeTxDbFromGff
•
reset
0
votes
1
reply
3.9k
views
create a txdb using makeTxDbFromGFF
bioconductor
txdb
maketxdbfromgff
6.4 years ago
Nader.Aryamanesh
• 0
0
votes
3
replies
3.7k
views
makeTxDbFromGFF Error: subscript contains NAs
genomicfeatures
granges
maketxdbfromgff
updated 6.7 years ago by
Hervé Pagès
16k • written 6.8 years ago by
marc_bes
• 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
3
votes
4
replies
2.7k
views
Saving and retrieving TxDB object
makeTxDBFromGFF
EISA
updated 3.7 years ago by
James W. MacDonald
65k • written 3.7 years ago by
nishanthemje
• 0
0
votes
2
replies
2.3k
views
makeTxDbFromGFF errors too many NAs and make.splicings
maketxdbfromgff
limma
updated 5.6 years ago by
Hervé Pagès
16k • written 5.6 years ago by
Karl Lundén
▴ 20
0
votes
7
replies
2.3k
views
makeTxDbFromGFF yields an empty TxDb
annotation
maketxdbfromgff
genomicfeatures
8.5 years ago
José Luis Lavín
▴ 10
3
votes
2
replies
2.2k
views
makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF)
genomicfeatures
gtf
maketxdbfromgff
iGenome
updated 7.5 years ago by
Martin Morgan
25k • written 7.5 years ago by
Marlin
▴ 20
0
votes
2
replies
2.2k
views
makeTxDbpackage after makeTxDbfromGFF --> Error in spc[[2]] : subscript out of bounds
gtf
TxDb
maketxdbfromgff
updated 8.9 years ago by
Hervé Pagès
16k • written 8.9 years ago by
yacine.badis
• 0
0
votes
2
replies
2.0k
views
makeTxDbFromGFF not capturing/displaying 'gene' records from GFF3 file.
genomicfeatures
makeTxDbFromGFF
updated 9.0 years ago by
Hervé Pagès
16k • written 9.0 years ago by
pterry
• 0
0
votes
4
replies
2.0k
views
MakeTxDbFromGFF creates empty object
maketxdbfromgff
updated 8.5 years ago by
Hervé Pagès
16k • written 8.5 years ago by
rebecca.halbach
• 0
0
votes
7
replies
1.9k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures
maketxdbfromgff
tx_type
gtf
updated 8.4 years ago by
Hervé Pagès
16k • written 8.4 years ago by
Karolin Wiedemann
• 0
0
votes
5
replies
1.7k
views
makeTxDbFromGFF returns empty object
genomicfeatures
txdb
maketxdbfromgff
8.0 years ago
TimothéeFlutre
▴ 80
0
votes
0
replies
1.5k
views
error with makeTxDbFromGFF
genomicfeatures
gff
custom genome
makeTxDbFromGFF
makeTxDbFromGRanges
5.1 years ago
xvazquezc
• 0
1
vote
2
replies
1.4k
views
mRNA start used instead of gene start in makeTxDbFromGFF
maketxdbfromgff
genomicfeatures
updated 8.0 years ago by
Hervé Pagès
16k • written 8.0 years ago by
TimothéeFlutre
▴ 80
0
votes
1
reply
1.4k
views
makeTxDbFromGFF error "stop codons that cannot be mapped to an exon"
genomicfeatures
txdb
maketxdbfromgff
updated 5.8 years ago by
daniel.vantwisk
▴ 50 • written 5.8 years ago by
marisa.e.miller
• 0
4
votes
2
replies
1.3k
views
distinguish DataSource from Provider and ProviderVersion in makeTxDbPackage
genomicfeatures
txdb
maketxdbfromgff
metadata
updated 8.0 years ago by
Valerie Obenchain
★ 6.8k • written 8.0 years ago by
TimothéeFlutre
▴ 80
0
votes
1
reply
1.2k
views
Error in .merge_transcript_parts(transcripts)
maketxdbfromgff
5.5 years ago
csijcs
• 0
0
votes
0
replies
1.2k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures
maketxdbfromgff
tx_type
gtf
8.4 years ago
Karolin Wiedemann
• 0
1
vote
2
replies
1.1k
views
Error while using GenomicFeatures package
genomicfeatures
maketxdbfromgff
updated 7.2 years ago by
Hervé Pagès
16k • written 7.3 years ago by
TFony
▴ 10
0
votes
0
replies
952
views
Annotation missing when using makeTxDbFromGFF
makeTxDbFromGFF
8.2 years ago
Udi Landau
▴ 30
0
votes
0
replies
903
views
Error using the makeTxDbFromGFF
maketxdbfromgff
6.3 years ago
bright602
• 0
2
votes
2
replies
867
views
Problem with MakeTxDbFromGFF
makeTxDbFromGff
14 months ago
stacy.genovese
• 0
22 results • Page
1 of 1
Recent ...
Replies
Answer: Differential gene expression analysis results
by
ATpoint
★ 4.1k
Pease do not open multiple posts for the same issue: https://support.bioconductor.org/p/9158194/#9158222 The support site is not meant f…
Comment: deseq2 results
by
sajadahmad41454
• 0
thank you for your response, should i remove or discard that sample? since the red outlier on left represents one of healthy samples.
Comment: deseq2 results
by
swbarnes2
★ 1.4k
It looks like the PCA plot of a real RNASeq experiment. The red outlier on the left might be the mathematical reason why you have few vali…
Comment: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
by
Dylan.Sheerin
• 0
Thank you very much, Gordon. I'll give voomLmFit a go!
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
by
Gordon Smyth
50k
Including subjectID in the design matrix always accounts for unbalanced sampling and patient variation but subjects with incomplete records…
Votes
Comment: deseq2 results
Comment: deseq2 results
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
Answer: Extremely small p-values using Limma for proteomic data
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