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How can i get repetitive elements genomic ranges in human genome?
repetitive elements IRanges GenomicRanges BSgenome
updated 3.7 years ago by 65k • written 3.7 years ago by ▴ 50
8
votes
8
replies
8.1k
views
How to remove out of bound rows from granges
Granges grangeslist
updated 4.7 years ago by ▴ 40 • written 8.5 years ago by ▴ 50
5
votes
8
replies
8.7k
views
Non overlapping granges (or opposite of subsetByOverlaps)
granges genomicranges iranges subsetByOverlaps
updated 2.2 years ago by • 0 • written 8.6 years ago by ▴ 50
0
votes
1
reply
2.2k
views
Is there any way to write my mutation dataframe to vcf file?
writevcf vcfr mutationalpattern deconstructSigs synbreed
updated 5.9 years ago by 3.8k • written 5.9 years ago by ▴ 50
0
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1
reply
1.1k
views
installation of Biocunductor packages in My home directory.
biocinstaller package installation installr
6.0 years ago vinod.acear ▴ 50
0
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0
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1.0k
views
How to run a CDHIT command of "BioSeqClass" package on DNAStringSet object of DNA sequences to get non-redundent set of sequences?
CD-HIT BioStrings cdhit biostrings BioSeqClass
6.8 years ago vinod.acear ▴ 50
0
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0
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3.7k
views
Comment: C: How to convert a DnaStringSet object to list of seq?
6.8 years ago vinod.acear ▴ 50
3
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4
replies
3.7k
views
How to convert a DnaStringSet object to list of seq?
dnastringset list stringset
updated 6.8 years ago by 25k • written 6.8 years ago by ▴ 50
0
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1
reply
1.0k
views
How to draw phylogeny tree for long genomes? ('msa' taking much time)
msa phylogenetic
updated 7.4 years ago by ▴ 290 • written 7.4 years ago by ▴ 50
0
votes
1
reply
979
views
Installation error GeneRFold and GeneR.
GeneRFold GeneR
updated 8.0 years ago by 25k • written 8.0 years ago by ▴ 50
0
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1
reply
1.2k
views
Comment: C: GeneR installation error
8.0 years ago vinod.acear ▴ 50
1
vote
3
replies
1.2k
views
GeneR installation error
GeneR
updated 8.0 years ago by 25k • written 8.0 years ago by ▴ 50
0
votes
0
replies
723
views
Package for classifying two classes of sequences using hidden markov models?
hmm classification
8.0 years ago vinod.acear ▴ 50
0
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0
replies
2.0k
views
Comment: C: How to get list of E.coli genes wit their details on Genome?
8.1 years ago vinod.acear ▴ 50
2
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2
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2.0k
views
How to get list of E.coli genes wit their details on Genome?
biomart maketxdbfrombiomart granges
updated 8.1 years ago by 6.7k • written 8.1 years ago by ▴ 50
0
votes
1
reply
1.4k
views
How to find index position of desired feature_by in TxDb granges?
granges txdb genomicfeatures
updated 8.1 years ago by 25k • written 8.1 years ago by ▴ 50
2
votes
2
replies
1.3k
views
How to rename seqlevels style (I, II, III, ...,XVI, Mito to 1,2,3,...16, 17.) in txdb granges?
renameSeqlevels mapSeqlevels grangeslist granges txdb
8.1 years ago vinod.acear ▴ 50
0
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0
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1.3k
views
Comment: C: How to rename seqlevels style (I, II, III, ...,VII, Mito to 1,2,3,...16, 17.)
8.1 years ago vinod.acear ▴ 50
2
votes
1
reply
827
views
Problem while installing genomicfeatures package.
genomicfeatures
8.2 years ago vinod.acear ▴ 50
1
vote
6
replies
1.5k
views
rGADEM not giving desired motif consistently
rGADEM
updated 8.3 years ago by ▴ 170 • written 8.3 years ago by ▴ 50
0
votes
1
reply
1.4k
views
Comment: C: motif scanning using position frequncy matrix of motif in a given set of DNAstr
8.4 years ago vinod.acear ▴ 50
0
votes
3
replies
1.4k
views
motif scanning using position frequncy matrix of motif in a given set of DNAstringset sequnces?.
motifdb matchpwm motif pwmenrich pwm
8.4 years ago vinod.acear ▴ 50
2
votes
1
reply
3.8k
views
Please suggest any good motif Discovery tool in R-Bioconductor.
motif motifdb meme
updated 8.4 years ago by 16k • written 8.4 years ago by ▴ 50
0
votes
1
reply
1.1k
views
Comment: C: I want to sample (random ) nucleic acids at middle 20 positions of DNAstring set
8.4 years ago vinod.acear ▴ 50
0
votes
3
replies
1.1k
views
I want to sample (random ) nucleic acids at middle 20 positions of DNAstring set
DNAStringSet sample
updated 8.4 years ago by 16k • written 8.4 years ago by ▴ 50
0
votes
3
replies
1.7k
views
I want have a score vector of length of grange that is overlapping with other grange.
granges findoverlaps subsetbyoverlaps
updated 8.4 years ago by ★ 11k • written 8.5 years ago by ▴ 50
0
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0
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1.7k
views
Comment: C: I want have a score vector of length of grange that is overlapping with other gr
8.4 years ago vinod.acear ▴ 50
0
votes
0
replies
3.5k
views
Comment: C: Extract three types of intergenic regions
8.5 years ago vinod.acear ▴ 50
0
votes
1
reply
3.5k
views
Comment: C: Extract three types of intergenic regions
8.5 years ago vinod.acear ▴ 50
8
votes
3
replies
4.3k
views
how to extract Granges not overlapping with other ganges?
Granges findoverlaps
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 50
0
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0
replies
1.5k
views
Comment: C: how much positions overlapped for each pair of the pairs obtained by findover
8.5 years ago vinod.acear ▴ 50
3
votes
2
replies
1.5k
views
how much positions overlapped for each pair of the pairs obtained by findoverlap.
granges genomicranges findoverlaps subsetbyoverlaps
updated 8.5 years ago by 16k • written 8.5 years ago by ▴ 50
0
votes
1
reply
2.7k
views
Comment: C: How to get Genomic feature in txdb format from biomart for sacCer2 (EF4) assembl
8.5 years ago vinod.acear ▴ 50
0
votes
1
reply
2.7k
views
Comment: C: How to get Genomic feature in txdb format from biomart for sacCer2 (EF4) assembl
8.5 years ago vinod.acear ▴ 50
0
votes
0
replies
2.7k
views
Comment: C: How to get Genomic feature in txdb format from biomart for sacCer2 (EF4) assembl
8.5 years ago vinod.acear ▴ 50
4
votes
7
replies
2.7k
views
How to get Genomic feature in txdb format from biomart for sacCer2 (EF4) assembly?
makeTxDbFromBiomart genomicfeatures txdb biomart
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 50
2
votes
10
replies
3.5k
views
Extract three types of intergenic regions
granges views annotation iranges
updated 8.5 years ago by ★ 1.7k • written 8.5 years ago by ▴ 50
0
votes
0
replies
3.5k
views
Comment: C: Extract three types of intergenic regions
8.5 years ago vinod.acear ▴ 50
0
votes
1
reply
3.5k
views
Comment: C: Extract three types of intergenic regions
8.5 years ago vinod.acear ▴ 50
0
votes
1
reply
3.5k
views
Comment: C: Extract three types of intergenic regions
8.5 years ago vinod.acear ▴ 50
1
vote
1
reply
827
views
mean and standard deviation at each point value of a list of matrices
mean standard deviation
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 50
0
votes
3
replies
1.1k
views
View of subsequences corresponding granges on +ve strand and rev. complementary of seq on -ve strand.
Views granges grangeslist iranges
updated 8.5 years ago by 16k • written 8.5 years ago by ▴ 50
0
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1
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8.1k
views
Comment: A: How to remove out of bound rows from granges
8.5 years ago vinod.acear ▴ 50
0
votes
0
replies
1.1k
views
Answer: A: View of subsequences corresponding granges on +ve strand and rev. complementary
8.5 years ago vinod.acear ▴ 50
0
votes
0
replies
1.1k
views
Answer: A: View of subsequences corresponding granges on +ve strand and rev. complementary
8.5 years ago vinod.acear ▴ 50
0
votes
0
replies
8.7k
views
Comment: C: Non overlapping granges (or opposite of subsetByOverlaps)
8.6 years ago vinod.acear ▴ 50
0
votes
0
replies
8.7k
views
Comment: C: Non overlapping granges (or opposite of subsetByOverlaps)
8.6 years ago vinod.acear ▴ 50
0
votes
0
replies
8.7k
views
Comment: C: Non overlapping granges (or opposite of subsetByOverlaps)
8.6 years ago vinod.acear ▴ 50
0
votes
0
replies
8.7k
views
Comment: C: Non overlapping granges (or opposite of subsetByOverlaps)
8.6 years ago vinod.acear ▴ 50
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