Showing : makeTxDbFromGFF • reset
2
votes
2
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823
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Problem with MakeTxDbFromGFF
makeTxDbFromGff
14 months ago • updated 13 months ago stacy.genovese • 0
3
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4
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2.6k
views
Saving and retrieving TxDB object
makeTxDBFromGFF EISA
updated 3.7 years ago by 65k • written 3.7 years ago by • 0
0
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0
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1.5k
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error with makeTxDbFromGFF
genomicfeatures gff custom genome makeTxDbFromGFF makeTxDbFromGRanges
5.0 years ago xvazquezc • 0
0
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1
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1.2k
views
Error in .merge_transcript_parts(transcripts)
maketxdbfromgff
5.4 years ago csijcs • 0
0
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2
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2.3k
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makeTxDbFromGFF errors too many NAs and make.splicings
maketxdbfromgff limma
updated 5.5 years ago by 16k • written 5.6 years ago by ▴ 20
0
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1
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1.3k
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makeTxDbFromGFF error "stop codons that cannot be mapped to an exon"
genomicfeatures txdb maketxdbfromgff
updated 5.8 years ago by ▴ 50 • written 5.8 years ago by • 0
0
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0
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889
views
Error using the makeTxDbFromGFF
maketxdbfromgff
6.2 years ago bright602 • 0
0
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1
reply
3.9k
views
create a txdb using makeTxDbFromGFF
bioconductor txdb maketxdbfromgff
6.4 years ago Nader.Aryamanesh • 0
0
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3
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3.6k
views
makeTxDbFromGFF Error: subscript contains NAs
genomicfeatures granges maketxdbfromgff
updated 6.7 years ago by 16k • written 6.8 years ago by • 0
1
vote
2
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1.1k
views
Error while using GenomicFeatures package
genomicfeatures maketxdbfromgff
updated 7.2 years ago by 16k • written 7.2 years ago by ▴ 10
3
votes
2
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2.2k
views
makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF)
genomicfeatures gtf maketxdbfromgff iGenome
updated 7.4 years ago by 25k • written 7.4 years ago by ▴ 20
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 ★ 6.8k • written 8.0 years ago by ▴ 80
1
vote
2
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1.3k
views
mRNA start used instead of gene start in makeTxDbFromGFF
maketxdbfromgff genomicfeatures
updated 8.0 years ago by 16k • written 8.0 years ago by ▴ 80
0
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5
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1.6k
views
makeTxDbFromGFF returns empty object
genomicfeatures txdb maketxdbfromgff
8.0 years ago TimothéeFlutre ▴ 80
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0
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942
views
Annotation missing when using makeTxDbFromGFF
makeTxDbFromGFF
8.2 years ago Udi Landau ▴ 30
8
votes
7
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3.4k
views
Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi refseq maketxdbfromgff fetchExtendedChromInfoFromUCSC genomeinfodb
updated 8.3 years ago by 16k • written 8.3 years ago by ▴ 10
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0
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1.2k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures maketxdbfromgff tx_type gtf
8.4 years ago Karolin Wiedemann • 0
0
votes
7
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1.8k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures maketxdbfromgff tx_type gtf
updated 8.4 years ago by 16k • written 8.4 years ago by • 0
0
votes
4
replies
2.0k
views
MakeTxDbFromGFF creates empty object
maketxdbfromgff
updated 8.4 years ago by 16k • written 8.4 years ago by • 0
0
votes
7
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2.3k
views
makeTxDbFromGFF yields an empty TxDb
annotation maketxdbfromgff genomicfeatures
8.5 years ago José Luis Lavín ▴ 10
0
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2
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2.2k
views
makeTxDbpackage after makeTxDbfromGFF --> Error in spc[[2]] : subscript out of bounds
gtf TxDb maketxdbfromgff
updated 8.8 years ago by 16k • written 8.8 years ago by • 0
0
votes
2
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2.0k
views
makeTxDbFromGFF not capturing/displaying 'gene' records from GFF3 file.
genomicfeatures makeTxDbFromGFF
updated 9.0 years ago by 16k • written 9.0 years ago by • 0
22 results • Page 1 of 1
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Comment: Different Shrunk Log2FC according with reference by andrebolerbarros ▴ 20
Thanks @atpoint for your answer! The issue with that is then it severely hinders the possiblity of using `apeglm` shrinking approach, sinc…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by ATpoint ★ 4.0k
The error that is relevant is `Aborted (core dumped)`. This line 2890 refers to the C source code that throws the error, it is not relevant…
Answer: Different Shrunk Log2FC according with reference by ATpoint ★ 4.0k
Please see: https://support.bioconductor.org/p/p134551/ I asked basically the same before. In short, reference level might have an influ…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by Gayatri • 0
What I meant is even after deleting the NCBI.sqlite file, and re-running the script, an empty NCBI.sqlite file (0 kb) is created which is c…
Comment: DESeq2 output used for PCA plot on R studio by ATpoint ★ 4.0k
> Increase variability for mutants: use larger subtractive modifiers I was thinking the same as swbarnes. You're doing some data munging h…
Votes
Comment: get BM error
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
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