Showing : coverage • reset
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ggbio: mirrored coverage plots for +/- strands
Coverage ggbio Coverage ggbio
updated 12.2 years ago by ★ 11k • written 12.2 years ago by ★ 1.7k
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16
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5.2k
views
subset a RleList using GRanges object?
Coverage Cancer IRanges Coverage Cancer IRanges
updated 12.2 years ago by 16k • written 12.2 years ago by ▴ 740
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1
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1.8k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage Annotation GO Cancer Organism edgeR DESeq GenomicRanges Rsubread easyRNASeq GO
updated 12.2 years ago by ▴ 320 • written 12.2 years ago by 53k
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1.5k
views
easyRNASeq packages: overlapping exons warning unsolved (?) and use of paired end information
Coverage Annotation GO Cancer Organism edgeR DESeq GenomicRanges easyRNASeq Coverage GO
12.2 years ago Nicolas Delhomme ▴ 320
5
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2
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3.7k
views
Gviz - show plus and minus strand from a bam
Sequencing Coverage Gviz Sequencing Coverage Gviz
updated 12.2 years ago by ★ 1.6k • written 12.2 years ago by ▴ 510
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1
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1.5k
views
MEDIPS rms normalization by input
Coverage MEDIPS Coverage MEDIPS
updated 12.3 years ago by ▴ 570 • written 12.3 years ago by ★ 13k
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2
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7.4k
views
how to obtain base counts from BAM file at specific genomic coordinates
SNP Sequencing Coverage Alignment Cancer Biostrings PROcess IRanges GenomicRanges SNP
updated 12.3 years ago by ★ 11k • written 12.3 years ago by 16k
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10
replies
2.0k
views
Computing the coverage on a bamfile with a huge amount of seqlevels
Coverage Coverage
updated 12.3 years ago by 16k • written 12.3 years ago by ▴ 360
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0
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4.8k
views
Bioconductor 2.13 is released
BiocViews aCGH SNP Transcription Sequencing miRNA Microarray Genetics Proteomics Coverage
12.3 years ago Dan Tenenbaum ★ 8.2k
0
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2
replies
1.6k
views
MEDIPS
Coverage MEDIPS Coverage MEDIPS
updated 12.3 years ago by ▴ 570 • written 12.3 years ago by ▴ 350
0
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1
reply
1.1k
views
about coverage profile comparison
Coverage Coverage
updated 12.4 years ago by ★ 13k • written 12.4 years ago by ▴ 500
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1
reply
1.1k
views
coverage() in IRanges gives >0 coverage when weight == 0
Coverage Coverage
updated 12.4 years ago by ▴ 290 • written 12.4 years ago by ▴ 40
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1
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1.0k
views
[devteam-bioc] Depth of Coverage and Base counts from BAM file
Coverage Cancer Rsamtools Coverage Cancer Rsamtools
12.4 years ago Hervé Pagès 16k
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1.1k
views
Connectionists: Open position for an Experienced Researcher at Johannes Kepler University Linz, Austria
Coverage PROcess Coverage PROcess
12.5 years ago Secretary Institute of Bioinformatics ▴ 20
0
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0
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1.2k
views
Open position for an Experienced Researcher at Johannes Kepler University Linz, Austria
Coverage Coverage
12.5 years ago Secretary Institute of Bioinformatics ▴ 20
0
votes
8
replies
2.3k
views
Filtering BAM files by start position for VariantTools
Coverage Cancer cycle VariantTools Coverage Cancer cycle VariantTools
updated 12.5 years ago by ▴ 250 • written 12.5 years ago by 25k
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0
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958
views
MEDIPS differential coverage
Coverage MEDIPS Coverage MEDIPS
12.7 years ago Sara Castelletti ▴ 40
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4
replies
2.1k
views
Rsamtools: Realloc integer overflow?
Coverage Coverage
updated 12.7 years ago by 25k • written 12.7 years ago by ★ 11k
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10
replies
2.0k
views
[Bioc] RNAseq less sensitive than microarrays? Is it a statistical issue?
Microarray Coverage Microarray Coverage
12.7 years ago Thomas Girke ★ 1.7k
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17
replies
3.9k
views
[Bioc] RNAseq less sensitive than microarrays? Is it a statistical issue?
Sequencing RNASeq Microarray qPCR Coverage edgeR DESeq Sequencing RNASeq Microarray qPCR
updated 12.7 years ago by ★ 13k • written 12.7 years ago by ▴ 330
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6
replies
2.2k
views
coverage on very large ReadGappedAlignmentsObject
Coverage genomes Coverage genomes
updated 12.7 years ago by 25k • written 12.7 years ago by ▴ 360
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3
replies
1.5k
views
Deleting object rows while looping - II
Coverage Alignment Cancer PROcess Coverage Alignment Cancer PROcess
updated 12.8 years ago by ★ 13k • written 12.8 years ago by 16k
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votes
2
replies
2.2k
views
cn.mops: copy number for low-coverage bam files?
Sequencing Coverage cn.mops Sequencing Coverage cn.mops
updated 12.8 years ago by ▴ 540 • written 12.8 years ago by ▴ 750
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3
replies
1.9k
views
Deleting object rows while looping - II
Coverage Alignment PROcess Coverage Alignment PROcess
updated 12.8 years ago by 25k • written 12.8 years ago by ▴ 90
0
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3
replies
4.5k
views
DESeq estimateDispersions
Coverage DESeq Coverage DESeq
updated 12.8 years ago by ★ 3.8k • written 12.8 years ago by ▴ 330
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5
replies
2.7k
views
ensemblVEP: passing on coverage / frequency information
Coverage VariantTools ensemblVEP Coverage VariantTools ensemblVEP
updated 12.8 years ago by ★ 6.8k • written 12.8 years ago by ★ 13k
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votes
10
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2.3k
views
Calculate Outer Positions of GappedAlignmentPairs
Coverage GenomicRanges Coverage GenomicRanges
updated 12.9 years ago by ★ 11k • written 12.9 years ago by ★ 1.6k
1
vote
0
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2.2k
views
pileup coverage from BAM file
Coverage Cancer IRanges GenomicRanges Coverage Cancer IRanges GenomicRanges
12.9 years ago Martin Morgan 25k
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5
replies
2.3k
views
Visualization of alignments with mismatch bases
SNP Coverage Alignment Visualization ggbio SNP Coverage Alignment Visualization ggbio
updated 12.9 years ago by ▴ 420 • written 12.9 years ago by ★ 11k
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0
replies
1.7k
views
pileup coverage from BAM file
Coverage Coverage
12.9 years ago Chris Cabanski ▴ 30
0
votes
1
reply
2.6k
views
Bioconductor Digest, Vol 120, Issue 12
Microarray qPCR Coverage Annotation Pathways Visualization Cancer Breast Organism affy
13.0 years ago Matthew Thornton ▴ 390
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3
replies
1.6k
views
speed of runmed on SimpleRleList
Coverage Cancer Coverage Cancer
updated 13.0 years ago by 16k • written 13.0 years ago by ▴ 740
0
votes
2
replies
1.8k
views
[devteam-bioc] Can you give me a sample to calculate the Read Depth with Rsamtools?
Coverage Cancer Rsamtools Coverage Cancer Rsamtools
updated 13.0 years ago by ▴ 10 • written 13.0 years ago by 25k
0
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1
reply
1.6k
views
Detection copy number variations with cn.MOPS package
Coverage cn.mops Coverage cn.mops
updated 13.1 years ago by ▴ 540 • written 13.2 years ago by ▴ 50
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1
reply
1.4k
views
IRanges install error with parallel/mcmapply
Coverage IRanges Coverage IRanges
updated 13.2 years ago by ★ 8.2k • written 13.2 years ago by ▴ 10
0
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1
reply
2.4k
views
compilation failed for package \'IRanges\' @str_utils.c(152) identifier \"timezone\" is undefined
Coverage IRanges Coverage IRanges
updated 13.3 years ago by ★ 8.2k • written 13.3 years ago by ★ 13k
0
votes
0
replies
3.6k
views
Bioconductor 2.11 is released
BiocViews SNP Transcription Sequencing miRNA Microbiome Microarray qPCR Genetics Coverage
13.3 years ago Dan Tenenbaum ★ 8.2k
0
votes
1
reply
3.1k
views
Integer overflow when summing an 'integer' Rle
Coverage GO Cancer convert IRanges Coverage GO Cancer convert IRanges
updated 13.4 years ago by ★ 1.2k • written 13.4 years ago by ★ 6.8k
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2
replies
1.4k
views
using RUnit inspect() feature in package testing
Coverage Coverage
updated 13.5 years ago by ▴ 750 • written 13.5 years ago by ★ 1.1k
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votes
3
replies
3.1k
views
Coverage of reads per base position from BAM files
Coverage GO Coverage GO
updated 13.5 years ago by 25k • written 13.5 years ago by ★ 13k
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2
replies
2.4k
views
Wig files?
Coverage Coverage
updated 13.6 years ago by ★ 11k • written 13.6 years ago by ▴ 230
0
votes
0
replies
945
views
Converting floating point RangedData to Rle
Coverage convert rtracklayer Coverage convert rtracklayer
13.6 years ago Marcin Imielinski ▴ 30
0
votes
6
replies
2.1k
views
IRanges coverage integer limit?
Coverage IRanges Coverage IRanges
updated 13.6 years ago by 16k • written 13.6 years ago by ★ 1.2k
0
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1
reply
1.1k
views
IRanges: the width argument of the coverage function
Coverage Coverage
updated 13.6 years ago by 16k • written 13.6 years ago by ★ 1.2k
0
votes
6
replies
1.7k
views
readGapppedAlignmentpairs questions
Coverage PROcess Coverage PROcess
updated 13.6 years ago by ★ 3.6k • written 13.6 years ago by ▴ 250
0
votes
0
replies
846
views
Coverage on GappedAlignment Pairs
Coverage PROcess Coverage PROcess
13.6 years ago Lakshmanan Iyer ▴ 50
0
votes
0
replies
830
views
Coverage on GappedAlignmentPairs
Coverage Coverage
13.6 years ago Lakshmanan Iyer ▴ 250
0
votes
1
reply
1.4k
views
TEQC package very slow
Coverage TEQC Coverage TEQC
13.6 years ago nac ▴ 280
0
votes
0
replies
1.7k
views
Working with GERP scores
Coverage Coverage
13.6 years ago Paul Leo ▴ 970
0
votes
0
replies
1.1k
views
TEQC package isssue with chromosome format
Coverage Coverage
13.7 years ago nac ▴ 280
152 results • Page 2 of 4
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Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list' by varying.mastodon.isyn • 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Comment: Confirm that OpenStats will not be archived (pryr dependency) by Marina • 0
Thank you!
Comment: AnnotationForge makeOrgPackage rsqlite_send_query error by ansley.r.burtch • 0
Hi! I am sure you are well into your career now and haven't worked on this for a while, but I wanted to let you know this is still helping …
Comment: limpa analysis advice by Gordon Smyth 53k
I prefer for limpa to work on precursor intensities, because my understanding is that precursors are the basic unit of identification and q…
Answer: Confirm that OpenStats will not be archived (pryr dependency) by shepherl 4.3k
As long as OpenStats is building cleanly and all needed stated dependencies are on CRAN or Bioconductor, OpenStats will not be archived. I…
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A: DESeq2 - VST eliminates zero values
Comment: Normalise to a housekeeping gene in DESEq2
Comment: limpa analysis advice
C: AnnotationForge makeOrgPackage rsqlite_send_query error
Answer: Limpa Pipeline Order
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