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GTF
•
reset
0
votes
0
replies
254
views
Subread2.0.3 featureCounts segmentation fault when loading gtf file
Subread
GTF
featureCounts
segmentationfault
7 months ago
yao hua
• 0
2
votes
8
replies
995
views
Error in Create switchAnalyzeRlist
AlternativeSplicing
RNASeq
IsoformSwitchAnalyzeR
gtf
written 13 months ago by
bpshtiwan
▴ 10
0
votes
1
reply
585
views
branchpointer: trouble to read gtf
gtfToExons
"Error:subscriptcontainsinvalidnames"
gtf
branchpointer
updated 2.0 years ago by
b.signal
• 0 • written 2.0 years ago by
frank.maiwald
• 0
3
votes
10
replies
4.2k
views
package to manipulate GTF files
gtf
updated 2.2 years ago by
Konstantinos Yeles
▴ 80 • written 2.2 years ago by
pcantalupo
• 0
2
votes
2
replies
816
views
Tximport missing values for group summarizing counts
tximport
rat
reference
GTF
salmon
3.2 years ago
keremwai
• 0
1
vote
2
replies
1.1k
views
DEXSeq Python script dexseq_prepare_annotation.py unable to process my .gtf file
dexseq
python
gtf
gff3
annotation
3.4 years ago
Raito92
▴ 60
2
votes
0
replies
747
views
News:
ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata
annotationhub
ensembl
gtf
2bit
News
updated 4.4 years ago by
nguyenlieuduoc
• 0 • written 4.4 years ago by
shepherl
3.5k
2
votes
2
replies
654
views
Tximport error (probably annotation lowercase incompatibility)
arabidopsis
tximport
gtf
annotation
updated 4.5 years ago by
Michael Love
40k • written 4.5 years ago by
francoagp
• 0
0
votes
0
replies
770
views
News:
ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
annotationdata
ensembl
gtf
2bit
News
4.6 years ago
shepherl
3.5k
1
vote
7
replies
864
views
News:
ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata
annotationhub
ensembl
gtf
2bit
News
4.9 years ago
shepherl
3.5k
9
votes
9
replies
7.5k
views
extracting gene names, gene id and transcript id
gtf
updated 5.1 years ago by
lee.s
▴ 70 • written 5.1 years ago by
Bogdan
▴ 660
0
votes
0
replies
767
views
News:
ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
ensembl
gtf
2bit
annotationdata
News
5.2 years ago
shepherl
3.5k
0
votes
0
replies
827
views
News:
ensembl 92 gtfs and fasta twobits have been added to AnnotationHub
ensembl
gtf
2bit
annotationhub
News
5.4 years ago
shepherl
3.5k
1
vote
0
replies
1.3k
views
News:
ensembl 91 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
ensembl
gtf
2bit
News
5.8 years ago
shepherl
3.5k
0
votes
2
replies
1.3k
views
makeTxDbFromGFF Error due to incompatible seqnames
summarizedexperiment
TxDb
gtf
genomicfeatures
updated 6.2 years ago by
Michael Love
40k • written 6.2 years ago by
filipeje
• 0
3
votes
2
replies
899
views
Import gff from character?
rtracklayer
gff
gtf
import
import.gff3
updated 6.2 years ago by
Martin Morgan
25k • written 6.2 years ago by
Marlin
▴ 20
0
votes
2
replies
1.8k
views
Exporting a GenomicRanges object as GTF/GFF file
genomicranges
rtracklayer
gtf
gff
export
6.3 years ago
rubi
▴ 110
1
vote
7
replies
2.7k
views
DEXSeq - Where to find and download the appropriate GTF reference file for Python Script
dexseq
gtf
gff
reference genome
updated 6.4 years ago by
James W. MacDonald
63k • written 6.4 years ago by
greg.mulhearn
• 0
3
votes
2
replies
1.9k
views
makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF)
genomicfeatures
gtf
maketxdbfromgff
iGenome
updated 6.9 years ago by
Martin Morgan
25k • written 6.9 years ago by
Marlin
▴ 20
0
votes
7
replies
1.6k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures
maketxdbfromgff
tx_type
gtf
updated 7.8 years ago by
Hervé Pagès
16k • written 7.8 years ago by
Karolin Wiedemann
• 0
0
votes
0
replies
1.0k
views
Get wrong tx_type when using GenomicFeatures::makeTxDbFromGTF
genomicfeatures
maketxdbfromgff
tx_type
gtf
7.8 years ago
Karolin Wiedemann
• 0
3
votes
4
replies
1.9k
views
having trouble with dexseq_prepare_annotation.py
dexseq
gtf
updated 7.9 years ago by
Alejandro Reyes
★ 1.9k • written 7.9 years ago by
vakul.mohanty
▴ 10
1
vote
2
replies
1.1k
views
Create Db for exon starts/ends using rtracklayer
rtracklayer
gtf
7.9 years ago
Mehmet Ilyas Cosacak
• 0
0
votes
3
replies
1.8k
views
dexseq hg19- create gff
gtf
gff
8.1 years ago
efratdahan21
• 0
0
votes
2
replies
1.5k
views
DEXSeq prepare_annotation.py error
DEXseq
gff
prepare annotation
gtf
transcript_id
8.1 years ago
arom2
• 0
0
votes
2
replies
2.0k
views
makeTxDbpackage after makeTxDbfromGFF --> Error in spc[[2]] : subscript out of bounds
gtf
TxDb
maketxdbfromgff
updated 8.3 years ago by
Hervé Pagès
16k • written 8.3 years ago by
yacine.badis
• 0
1
vote
6
replies
3.5k
views
Building sqlite file from gtf
gtf
sqlite
mm9
8.8 years ago
Patrick Schorderet
▴ 20
27 results • Page
1 of 1
Recent ...
Replies
Comment: Speeding up of DelayedArray::write_block()
by
Koki
▴ 10
Thank you, I have a very clear understanding of the situation. > COO_Sparse_HDF5RealizationSink(), writeHDF5SparseArray(), COO_H5SparseArr…
Comment: Speeding up of DelayedArray::write_block()
by
Koki
▴ 10
There are a few places inside my `DelayedTensor` package that use `SparseArraySeed`. Will these stop working in next coming BioC 3.18, whe…
Comment: DelayedArray::read_sparse_block
by
Hervé Pagès
16k
No. But I will need to modify the `write_block()` method for TENxRealizationSink implemented in **HDF5Array** to make it handle blocks that…
Answer: ''Model_Matrix'' error
by
Gordon Smyth
48k
This is actually an error message from base R rather than from limma. The error says that `Group` contains 0 or 1 levels, so your assumptio…
Comment: Speeding up of DelayedArray::write_block()
by
Hervé Pagès
16k
> I don't know the details but do you mean using HDF5RealizationSink or TENxRealizationSink will make it possible to writing sparse multi-d…
Votes
Steps needed to change design (relevel factors) in DESeq2
Steps needed to change design (relevel factors) in DESeq2
Answer: DMRcate design
Answer: DMRcate design
Comment: DMRcate design
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