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2
votes
1
answer
48
views
1
answer
Problem with extracting information about exons from TxDb.Hsapiens.UCSC.hg19.knownGene: incorrect number of exons and overlapping exons
granges ucsc txdb txdb.hsapiens.ucsc.hg19.knowngene exons written 6 days ago by olavur • 10 • updated 6 days ago by James W. MacDonald ♦ 48k
0
votes
0
answers
40
views
0
answers
How is it possible to override the constructor of the GRanges class?
genomicranges granges written 8 days ago by Shaurya Jauhari • 0
3
votes
3
answers
3.1k
views
3
answers
Non overlapping granges (or opposite of subsetByOverlaps)
iranges genomicranges granges subsetbyoverlaps written 3.2 years ago by vinod.acear • 30 • updated 12 days ago by doublehelix31 • 0
0
votes
0
answers
63
views
0
answers
Obtain GRanges object by gene names
granges gene symbol ideoviz written 28 days ago by Arman Shahrisa • 10
2
votes
1
answer
62
views
1
answer
Split GRanges to GRangeList based on mcols value
granges written 4 weeks ago by unamourdeswann • 0 • updated 4 weeks ago by Michael Lawrence ♦ 10k
1
vote
1
answer
109
views
1
answer
Split AME .tsv file into GRanges object or DataFrame
granges motif meme dataframe ame written 7 weeks ago by rbronste • 60 • updated 7 weeks ago by Michael Lawrence ♦ 10k
2
votes
1
answer
100
views
1
answer
Build GPos from IPos
genomicranges granges gpos written 12 weeks ago by maltethodberg • 100 • updated 11 weeks ago by Hervé Pagès ♦♦ 13k
2
votes
1
answer
91
views
1
answer
Intra-range transformation on GPos-objects?
genomicranges granges gpos written 12 weeks ago by maltethodberg • 100 • updated 11 weeks ago by Hervé Pagès ♦♦ 13k
0
votes
2
answers
125
views
2
answers
Selecting columns form a list of grange objects
granges R grange written 12 weeks ago by g.k • 0
2
votes
1
answer
127
views
1
answer
Concatenate a list of genomic ranges
genomicranges granges R written 3 months ago by g.k • 0 • updated 3 months ago by James W. MacDonald ♦ 48k
4
votes
3
answers
186
views
3
answers
the closest gene to a breakpoint
granges plyranges written 3 months ago by Bogdan • 530 • updated 3 months ago by Gordon Smyth ♦ 35k
0
votes
0
answers
123
views
0
answers
getPromoterSeq error "Error in value[[3L]](cond) : record 1 (1:-XXXX-XXX) was truncated"
genomicfeatures granges getpromoterseq written 3 months ago by jerrywu1987 • 0
5
votes
1
answer
198
views
1
answer
subsetByOverlaps : comparing GRANGES and keeping all the information in the METACOLUMNS
granges intersect bedtools written 3 months ago by Bogdan • 530 • updated 3 months ago by lee.s • 40
1
vote
1
answer
115
views
1
answer
Subsetting GRanges objext
granges subsetting written 4 months ago by lalchungnungabt17 • 0 • updated 4 months ago by James W. MacDonald ♦ 48k
0
votes
1
answer
195
views
1
answer
Compute average score across multiple bed files
granges R chip-seq bed files written 4 months ago by jinseok • 0 • updated 4 months ago by spotifywebplayer • 0
2
votes
1
answer
110
views
1
answer
Error to rename seqlevels in Granges interactions
granges interactionset written 5 months ago by Vinicius Henrique da Silva • 20 • updated 5 months ago by Aaron Lun • 21k
0
votes
2
answers
175
views
2
answers
Merging each element of a list of Genomic range
granges R txdb cds orf written 6 months ago by q.thomas • 0 • updated 6 months ago by James W. MacDonald ♦ 48k
0
votes
0
answers
176
views
0
answers
Detect Sites with Minimum Gap in GRanges Object
genomicranges granges R grange written 8 months ago by g.k • 0
0
votes
0
answers
176
views
0
answers
Metadata sheet for DEXSeq analysis
dexseq granges summarizeoverlaps isoforms differential isoform usage written 8 months ago by A • 10
1
vote
1
answer
199
views
1
answer
Detecting Overlaps within Grange Object
iranges granges R grange written 8 months ago by g.k • 0 • updated 8 months ago by Michael Lawrence ♦ 10k
0
votes
0
answers
156
views
0
answers
R_Granges_adding merged Metadata columns
granges findoverlaps written 8 months ago by me.saichi • 0
2
votes
1
answer
237
views
1
answer
Features within 2kb window, but with resampling
genomicranges granges slidingwindow written 9 months ago by bruce01campus • 0 • updated 9 months ago by Michael Lawrence ♦ 10k
2
votes
1
answer
250
views
1
answer
Splitting lines of a GRanges object based on character list
granges grangeslist written 9 months ago by stephen.williams • 10 • updated 9 months ago by Michael Lawrence ♦ 10k
3
votes
1
answer
337
views
1
answer
coverage() output SimpleRleList cannot be converted to GRanges
coverage genomicranges granges bug rlelist written 10 months ago by xiaotong.yao23 • 0 • updated 10 months ago by Hervé Pagès ♦♦ 13k
0
votes
0
answers
199
views
0
answers
coercion to Granges from empty data.frame ==> unexpected behavior ??
granges coercion written 10 months ago by Malcolm Cook • 1.5k
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