Showing : IRanges • reset
1
vote
4
replies
208
views
IRanges::findOverlapPairs cannot take inputs if they are too large
IRanges GenomicRanges
12 weeks ago • updated 10 weeks ago Yixin • 0
1
vote
1
reply
99
views
mean coverage plot of IRanges / Granges object
IRanges
updated 3 months ago by 57k • written 3 months ago by • 0
1
vote
2
replies
185
views
Question about nearest function in R package IRanges
nearest IRanges
updated 4 months ago by ★ 4.3k • written 4 months ago by • 0
2
votes
3
replies
185
views
Recycling a DNAStringSet over an IRangesList in extractAt()
Biostrings IRanges
7 months ago Nicholas • 0
1
vote
1
reply
192
views
GenomicRanges equivalent to bedtools cluster
IRanges GenomicRanges
updated 8 months ago by 57k • written 8 months ago by • 0
0
votes
1
reply
153
views
need help with overlap overrepresentation using permutation tests for composite genomic ranges
regioneR granges iranges
updated 9 months ago by ▴ 130 • written 14 months ago by • 0
0
votes
1
reply
163
views
How can i get repetitive elements genomic ranges in human genome?
repetitive elements IRanges GenomicRanges BSgenome
updated 11 months ago by 57k • written 11 months ago by ▴ 50
0
votes
1
reply
144
views
how to plot iranges in r version 4.0.0?
IRanges
13 months ago aissabenyoucef • 0
0
votes
1
reply
147
views
Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4 Rcpp InteractionSet IRanges Rle
updated 13 months ago by ★ 27k • written 13 months ago by • 0
8
votes
10
replies
327
views
Compare ranges from two GRanges and check if the ranges from the first GRanges is contained in another.
GRanges IRanges
updated 13 months ago by 57k • written 13 months ago by ▴ 50
4
votes
6
replies
221
views
CAGEr - Error with aggregateTagClusters() - invalid class IRanges object: width(x) cannot contain negative integers
CAGEr IRanges aggregateTagClusters
14 months ago mirkocelii ▴ 40
0
votes
0
replies
116
views
No methods found in package Biobase for request: read.AnnotatedDataFrame
software error biobase Iranges ArrayExpressHTS
16 months ago Ed Siefker ▴ 230
6
votes
11
replies
3.0k
views
Intergenic coordinates with Genomic Feaures
genomicranges genomicfeatures iranges
updated 18 months ago by • 0 • written 6.3 years ago by ▴ 20
0
votes
0
replies
208
views
Is the ballgownrsem function still supported?
ballgown rsem iranges
19 months ago YH • 0
0
votes
4
replies
496
views
IRanges: solving row 5: range cannot be determined from the supplied arguments (too many NAs)
IRanges rtracklayer
updated 21 months ago by 57k • written 21 months ago by ▴ 10
0
votes
0
replies
179
views
DMDeepm6A: solve_user_SEW0", start, end, width, PACKAGE = "IRanges
rtracklayer IRanges DMDeepm6A
21 months ago jovel_juan ▴ 10
0
votes
1
reply
753
views
Error in IRanges, In range 1: 'end' must be >= 'start' - 1.: .Call2(\"solve_user_SEW0\", start, end, width, PACKAGE = \"IRanges\")"
Genomicranges IRanges
updated 21 months ago by 57k • written 21 months ago by • 0
0
votes
7
replies
357
views
Best way to subset one IRanges by list of IRanges
iranges
22 months ago Robert M. Flight ▴ 280
1
vote
3
replies
425
views
Correct way to split and unsplit a DataFrame
s4vectors iranges
updated 23 months ago by 11k • written 23 months ago by ▴ 70
0
votes
1
reply
247
views
Diffbind problems with negative widths in IRanges and chromosome ranges after dba.report
diffbind IRanges
updated 23 months ago by ★ 4.0k • written 23 months ago by • 0
0
votes
1
reply
274
views
Annotating protein sequences
Protein iranges sequencing
2.4 years ago ieuangw • 0
2
votes
2
replies
826
views
Error in installation of scran
S4Vectors IRanges XVector GenomicRanges scran
updated 2.5 years ago by ★ 27k • written 2.5 years ago by • 0
4
votes
2
replies
445
views
Speed efficient way to select the n-th element from GRangsList
R GenomicRanges IRanges
2.6 years ago foehn ▴ 60
3
votes
7
replies
5.2k
views
Non overlapping granges (or opposite of subsetByOverlaps)
granges genomicranges iranges subsetByOverlaps
updated 2.6 years ago by • 0 • written 5.8 years ago by ▴ 50
2
votes
1
reply
407
views
Bug in follow and precede
software error genomicranges iranges
updated 2.6 years ago by ★ 6.7k • written 2.7 years ago by • 0
0
votes
3
replies
378
views
GenomicRanges based on indices or more conditions, and add column from match
genomicranges iranges findoverlaps
2.8 years ago francesca casalino ▴ 50
3
votes
3
replies
531
views
Gaia results including negative widths
gaia genomicranges iranges
updated 3.0 years ago by ▴ 40 • written 3.0 years ago by ▴ 10
2
votes
1
reply
348
views
IRanges seqselect and subsetByRanges
Iranges defunct
updated 3.0 years ago by 11k • written 3.0 years ago by • 0
0
votes
15
replies
789
views
Looking for the source for IRanges 2.8.1, S4Vectors 0.12.1 and XVector 0.14.0
bioconductor iranges s4vectors xvector r 3.3.2
updated 3.0 years ago by ▴ 10 • written 3.0 years ago by • 0
0
votes
0
replies
405
views
IRanges error while input rsem data into ballgown : .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges")
ballgown rsem iranges
3.0 years ago kicheol.kim • 0
1
vote
0
replies
1.1k
views
IRanges error while input rsem data into ballgown : .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges")
ballgown rsem iranges
3.1 years ago • updated 3.0 years ago kicheol.kim • 0
0
votes
1
reply
464
views
TEQC - new version Bioc - problem with IRanges
teqc iranges
updated 3.1 years ago by ▴ 10 • written 3.1 years ago by • 0
0
votes
0
replies
358
views
Avoid rotating vector when doing arithmetic on different length IRanges RleList entries
iranges s4vectors rle rlelist
3.1 years ago endrebak85 ▴ 30
2
votes
2
replies
924
views
IRanges which are not S4 generic: endoapply mendoapply error in loading oligoclasses
iranges oligoclasses BiocGenerics
3.1 years ago GENOMIC_region • 0
0
votes
1
reply
368
views
CNRegions gives error in IRanges Package
CNregions iranges iClusterPlus
3.1 years ago sumonaray55 • 0
0
votes
2
replies
531
views
VariantAnnotation::locateVariants error coming from XVector
variantannotation xvector iranges
3.2 years ago Vivek.b ▴ 100
2
votes
5
replies
2.4k
views
unlist doesn't work for IRanges
iranges
updated 3.2 years ago by 57k • written 3.2 years ago by ▴ 450
1
vote
2
replies
552
views
Detecting Overlaps within Grange Object
r grange granges iranges
updated 3.3 years ago by 11k • written 3.3 years ago by • 0
0
votes
5
replies
621
views
HiTC importC not working
HiTC IRanges windows debian
updated 3.4 years ago by ▴ 260 • written 3.4 years ago by • 0
0
votes
1
reply
656
views
Error in .Primitive("c")(<S4 object of class "IRanges">) : could not find symbol "recursive" in environment of the generic function running msa
msa iranges
updated 3.5 years ago by ▴ 260 • written 3.5 years ago by • 0
0
votes
1
reply
489
views
Error in export ifelse from IRanges
iranges ifelse package namespace export
updated 3.5 years ago by 57k • written 3.5 years ago by • 0
2
votes
2
replies
578
views
Packages employing RangedSummarizedExperiment objects
rangedsummarizedexperiment packages granges iranges
updated 3.6 years ago by ★ 27k • written 3.6 years ago by ▴ 60
1
vote
4
replies
1.5k
views
biocLite updating problem with Ubuntu 17.10
ubuntu biocgenerics s4vectors IRanges annotationdbi
updated 3.6 years ago by 25k • written 3.6 years ago by • 0
0
votes
1
reply
527
views
Rcpp adding circular ranges to GRanges object in c++
GRanges circular rcpp IRanges
3.7 years ago hauken_heyken ▴ 80
4
votes
17
replies
1.8k
views
How to construct a valid GRanges object from RCPP and pass back to R
GRanges IRanges RCPP Constructor
updated 3.7 years ago by ▴ 10 • written 3.8 years ago by ▴ 80
0
votes
0
replies
481
views
resize functions causes an error - "could not find function "unsafe.update"
genomicranges iranges resize
3.8 years ago Assa Yeroslaviz ★ 1.5k
7
votes
4
replies
1.1k
views
BiocGenerics built with R 3.4.2 changes behaviour
biocgenerics iranges variantannotation
updated 3.8 years ago by 15k • written 3.8 years ago by ▴ 40
6
votes
6
replies
760
views
Implementing fast mathematical and statistical operations on genomic variables in bioconductor
genomicranges biocgenerics rlelist genomicvars iranges
updated 3.8 years ago by 15k • written 3.8 years ago by ▴ 20
0
votes
4
replies
608
views
Problem with IRanges and GenomicRanges
iranges genomicranges
updated 3.9 years ago by 15k • written 3.9 years ago by • 0
1
vote
4
replies
922
views
IRanges (GRanges): Inconsistent behaviour when overlapping ranges of width 0
Iranges granges
updated 3.9 years ago by 15k • written 3.9 years ago by ▴ 40
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Comment: Using R BioMart getting orthologus genes between two species by Kevin Blighe 3.2k
Then, I think that *biomaRt* may not be what you want, but you tagged it in your post (?) Take a look at the Ensembl REST APIs (in particul…
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Unfortunately, I have to save my time to address software related questions. For questions about how to set up your statistical analysis, I…
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Oh if you are interested in comparing FUS vs NEG in the above sample order, you should define `replicate` as `factor(c(1,2,1,2,3,4,3,4))` a…
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*"I would like to compare the different "cell types" against each other while taking into account the "patient" and the "disease" effect."*…
Comment: How can I use geom_label_repel with EnhancedVolcano? by Loren ▴ 10
Thank you so much!
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Comment: How can I use geom_label_repel with EnhancedVolcano?
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Answer: Accession ID Conversion and Missing Results
Answer: Accession ID Conversion and Missing Results
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