Showing : makeTxDbFromGff • reset
2
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1.3k
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Problem with MakeTxDbFromGFF
makeTxDbFromGff
22 months ago stacy.genovese • 0
3
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4
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3.4k
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Saving and retrieving TxDB object
makeTxDBFromGFF EISA
updated 4.4 years ago by 67k • written 4.4 years ago by • 0
0
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1.8k
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error with makeTxDbFromGFF
genomicfeatures gff custom genome makeTxDbFromGFF makeTxDbFromGRanges
5.7 years ago xvazquezc • 0
0
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1
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1.4k
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Error in .merge_transcript_parts(transcripts)
maketxdbfromgff
6.1 years ago csijcs • 0
0
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2
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2.6k
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makeTxDbFromGFF errors too many NAs and make.splicings
maketxdbfromgff limma
updated 6.2 years ago by 16k • written 6.3 years ago by ▴ 20
0
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1.6k
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makeTxDbFromGFF error "stop codons that cannot be mapped to an exon"
genomicfeatures txdb maketxdbfromgff
updated 6.5 years ago by ▴ 50 • written 6.5 years ago by • 0
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1.1k
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Error using the makeTxDbFromGFF
maketxdbfromgff
6.9 years ago bright602 • 0
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1
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4.2k
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create a txdb using makeTxDbFromGFF
bioconductor txdb maketxdbfromgff
7.1 years ago Nader.Aryamanesh • 0
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3
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4.1k
views
makeTxDbFromGFF Error: subscript contains NAs
genomicfeatures granges maketxdbfromgff
updated 7.4 years ago by 16k • written 7.5 years ago by • 0
1
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2
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1.3k
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Error while using GenomicFeatures package
genomicfeatures maketxdbfromgff
updated 7.9 years ago by 16k • written 7.9 years ago by ▴ 10
3
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2
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2.4k
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makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF)
genomicfeatures gtf maketxdbfromgff iGenome
updated 8.1 years ago by 25k • written 8.1 years ago by ▴ 20
1
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2
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1.5k
views
mRNA start used instead of gene start in makeTxDbFromGFF
maketxdbfromgff genomicfeatures
updated 8.7 years ago by 16k • written 8.7 years ago by ▴ 80
4
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2
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1.5k
views
distinguish DataSource from Provider and ProviderVersion in makeTxDbPackage
genomicfeatures txdb maketxdbfromgff metadata
updated 8.7 years ago by ★ 6.8k • written 8.7 years ago by ▴ 80
0
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5
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1.9k
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makeTxDbFromGFF returns empty object
genomicfeatures txdb maketxdbfromgff
8.7 years ago TimothéeFlutre ▴ 80
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1.1k
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Annotation missing when using makeTxDbFromGFF
makeTxDbFromGFF
8.9 years ago Udi Landau ▴ 30
8
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7
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4.0k
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Generating a proper TxDb instance from NCBI GFF Annotations File
ncbi refseq maketxdbfromgff fetchExtendedChromInfoFromUCSC genomeinfodb
updated 9.0 years ago by 16k • written 9.0 years ago by ▴ 10
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7
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2.1k
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Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures maketxdbfromgff tx_type gtf
updated 9.1 years ago by 16k • written 9.1 years ago by • 0
0
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0
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1.3k
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Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures maketxdbfromgff tx_type gtf
9.1 years ago Karolin Wiedemann • 0
0
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4
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2.2k
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MakeTxDbFromGFF creates empty object
maketxdbfromgff
updated 9.1 years ago by 16k • written 9.1 years ago by • 0
0
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7
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2.6k
views
makeTxDbFromGFF yields an empty TxDb
annotation maketxdbfromgff genomicfeatures
9.2 years ago José Luis Lavín ▴ 10
0
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2
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2.5k
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makeTxDbpackage after makeTxDbfromGFF --> Error in spc[[2]] : subscript out of bounds
gtf TxDb maketxdbfromgff
updated 9.5 years ago by 16k • written 9.5 years ago by • 0
0
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2
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2.3k
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makeTxDbFromGFF not capturing/displaying 'gene' records from GFF3 file.
genomicfeatures makeTxDbFromGFF
updated 9.7 years ago by 16k • written 9.7 years ago by • 0
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Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0
The estimateGLMRobustDisp() function seems to have an effect on glmQLFit(), even in edgeR 4 (4.4.1). If I use estimateGLMRobustDisp(), like…
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Here, estimateGLMRobustDisp() was used just to get the diagnostic BCV plot by plotBCV(y). The robust NB dispersions were not used for the D…
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I have to reserve my time on the support site for software related questions. I recommend working with a local statistician or someone fami…
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I would probably just do the M vs M analysis. You could instead include a term for sex and have a model with all 45 samples, but the M vs M…
Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0
They provide the code they used for DGE analysis in a gitlab link that can be found in the paper. In there you can find: ```` # estimate d…
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C: How does edgeR cpm function calculate log(CPM) values?
C: How does edgeR cpm function calculate log(CPM) values?
Answer: Incorporating Salmon offset matrix into Wilcoxon DEG analysis
scater/scran with TPMs from Salmon - counts?
A: Full length single-cell RNA-seq - tximport output for downstream analysis
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