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genomeintervals
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0
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43
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Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals
GenomicRanges
3 days ago
gshweta95
• 0
2
votes
3
replies
1.3k
views
GRanges object from gene list
granges
bed
genomicranges
genomeintervals
deseq2
6.2 years ago
rbronste
▴ 60
2
votes
1
reply
1.6k
views
Extracting UTRs from exon and CDS data
genomeintervals
UTRs
exons
CDS
GenomicRanges
updated 6.7 years ago by
Michael Lawrence
★ 11k • written 6.7 years ago by
rubi
▴ 110
3
votes
2
replies
1.3k
views
What is the main difference between nclist and intervaltree algorithm in GenomicRanges packages ?
nclist
genomeintervals
updated 8.2 years ago by
Hervé Pagès
16k • written 8.2 years ago by
Jurat Shahidin
▴ 80
1
vote
8
replies
1.6k
views
Bug: readGff3 isRightOpen should be FALSE
genomeintervals
updated 8.8 years ago by
Nicolas Delhomme
▴ 320 • written 8.8 years ago by
sjackman
• 0
0
votes
1
reply
1.2k
views
cannot load genomeIntervals package
genomeIntervals
updated 8.8 years ago by
Nicolas Delhomme
▴ 320 • written 9.0 years ago by
mhz
• 0
0
votes
1
reply
2.5k
views
biocLite("TxDb.Hsapiens.UCSC.hg19.knownGene") fails
BSgenome
hexbin
BSgenome
IRanges
genomeIntervals
GenomicRanges
girafe
Rsamtools
HiTC
HiTC
updated 11.0 years ago by
Dan Tenenbaum
★ 8.2k • written 11.0 years ago by
Wim Kreinen
▴ 100
0
votes
0
replies
866
views
convert "Genome_intervals_stranded" to "Genome_intervals"? (girafe)
Annotation
convert
genomeIntervals
Annotation
convert
genomeIntervals
12.1 years ago
delhomme@embl.de
★ 1.2k
0
votes
1
reply
895
views
gff files: how to tell if right-open interval convention used?
genomeIntervals
genomeIntervals
updated 13.0 years ago by
Hervé Pagès
16k • written 13.0 years ago by
Julien Gagneur
▴ 50
0
votes
0
replies
999
views
stranded findOverlaps
Sequencing
Annotation
GO
rtracklayer
IRanges
genomeIntervals
Sequencing
Annotation
GO
14.2 years ago
Robert Castelo
★ 3.1k
10 results • Page
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Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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