Showing : RSamtools • reset
0
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230
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bcftools norm Equivalent
Rsamtools
written 4 weeks ago by ★ 1.6k
0
votes
2
replies
606
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Installation error for Rsamtools.
Rsamtools
updated 13 months ago by ★ 5.0k • written 13 months ago by • 0
2
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1
reply
823
views
Is random access by row index possible for an indexed VCF file?
Rsamtools VariantAnnotation
updated 24 months ago by 68k • written 24 months ago by ▴ 180
0
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0
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1.2k
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Pysam pileup and Rsamtools pileup output discrepancy
Pysam pileup Rsamtools RNASeq
2.4 years ago Xinqi • 0
0
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0
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819
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[Rsamtools] pileup option max_depth behaviour
Rsamtools pileup
2.6 years ago romain.lannes • 0
0
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0
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995
views
How to speed up pileup from Rsamtools?
Rsamtools pileup
2.8 years ago alexandr.gopanenko ▴ 50
2
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4
replies
3.8k
views
10x BAM to count matrix in Rsubread and Rsamtools- cellCounts vs. featureCounts
Rsamtools Rsubread
updated 3.0 years ago by 53k • written 3.0 years ago by • 0
0
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0
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926
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Rsamtools pileup help
Rsamtools pileup
3.1 years ago JoeMG • 0
0
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1
reply
1.4k
views
Samtools markdup in Rsamtools
Rsamtools
updated 3.1 years ago by 25k • written 3.1 years ago by • 0
0
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2
replies
1.6k
views
scanBam
Rsamtools Rsam
updated 3.1 years ago by 25k • written 3.1 years ago by • 0
1
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0
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935
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Data format format for summarising each NGS read without collapsing into a count
DataRepresentation exSTRa Rsamtools
3.5 years ago Rick ▴ 10
3
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2
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1.9k
views
how to use Rsamtools to parse extra fields from STAR alignment
Rsamtools
3.6 years ago Jiping Wang ▴ 90
4
votes
13
replies
6.0k
views
BiocParallel error with ChIPQC
BiocManager ChIPQC RSamtools BiocParallel
updated 3.1 years ago by ★ 5.3k • written 3.7 years ago by • 0
0
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0
replies
1.4k
views
failed to open file using Signac maybe related to Rsamstools
Rsamtools
3.9 years ago Haemin • 0
1
vote
0
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1.7k
views
How could I include the unmapped reads of a BAM file for further analysis?
GenomicAlignments Biostrings Rsamtools
4.0 years ago L ▴ 50
0
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18
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6.3k
views
Indexing FASTA file using RSamtools
Rsamtools GenomicFeatures
4.1 years ago • updated 4.0 years ago rbenel ▴ 50
0
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0
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1.0k
views
confused interpreting results from scanBam in RSamtools
Rsamtools Rsa
4.1 years ago sara • 0
0
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0
replies
1.1k
views
Rsamtools and data.table OR advice of packages
data.table Rsamtools NGS
4.1 years ago sara • 0
1
vote
3
replies
2.9k
views
Rsamtools : Extracting Unmapped Reads from BAM file
Unmapped RNAseq Rsamtools
4.3 years ago polemiraza ▴ 70
0
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0
replies
1.0k
views
Difficulty exporting consensus sequence from bam file
Rsamtools sequenceLayer
4.7 years ago mike_flower • 0
0
votes
1
reply
1.2k
views
Rsamtools: how to output base positions on reads
Rsamtools
updated 4.7 years ago by 25k • written 4.7 years ago by • 0
4
votes
9
replies
2.9k
views
How to run getSeq() on a GRanges object with invalid DNA letters?
Rsamtools Biostrings
updated 4.7 years ago by 16k • written 4.8 years ago by ▴ 270
1
vote
1
reply
1.4k
views
could not find function "scanBam"
Rsamtool Rsamtools
updated 4.8 years ago by 25k • written 4.8 years ago by • 0
0
votes
1
reply
1.1k
views
Issue with Rsamtools reading a remote file on Windows
Rsamtools
updated 4.5 years ago by • 0 • written 4.9 years ago by • 0
2
votes
1
reply
1.3k
views
Installation error if message implemented in .Rprofile
Rsamtools
updated 4.9 years ago by ★ 6.6k • written 4.9 years ago by ▴ 10
2
votes
2
replies
1.6k
views
RSamtools idxstats does not return unmapped reads
Rsamtools
4.9 years ago mja18 ▴ 40
1
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2
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1.7k
views
RSamtools idxstatsBam not working with remote bam file
Rsamtools
4.9 years ago mja18 ▴ 40
2
votes
4
replies
4.3k
views
isSecondaryAlignment=FALSE with BWA MEM mapped BAM files not working?
bwa Rsamtools
4.9 years ago sbcn ▴ 80
3
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5
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4.3k
views
Split a BAM file with read groups
readgroup bam Rsamtools
4.9 years ago sbcn ▴ 80
0
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2
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1.4k
views
Visualising read alignments in
GenomicAlignments Rsamtools
written 5.0 years ago by • 0
4
votes
4
replies
6.0k
views
Best way to handle tags of bam files
GenomicAlignments bam Rsamtools
written 5.0 years ago by ▴ 20
2
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6
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2.0k
views
memory leak when subsampling BAM
GenomicFiles ShortRead Rsamtools
5.0 years ago robmaz77 ▴ 20
0
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2
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2.0k
views
Support for CSI indexes in Rsamtools
Rsamtools
5.3 years ago • updated 5.2 years ago bernatgel ▴ 150
6
votes
5
replies
4.9k
views
Extracting Sequences from Fasta Files with Rsamtools
Rsamtools
updated 5.3 years ago by 25k • written 5.7 years ago by ▴ 20
0
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0
replies
1.2k
views
How to get sequence size of insertion/deletion in sam file pileup (e.g. using Rsamtools)
Rsamtools pileup insertion deletion
5.5 years ago madsheilskov ▴ 10
12
votes
5
replies
5.7k
views
Rsamtools is not available for (for R version 4.0.2)
Rsamtools
updated 19 months ago by • 0 • written 5.7 years ago by ▴ 40
2
votes
2
replies
1.9k
views
How to access metadata of GAlignments objects
rtracklayer Rsamtools GAlignments GRanges metadata
updated 5.8 years ago by 16k • written 5.8 years ago by ▴ 10
0
votes
5
replies
2.3k
views
ATACSeqQC - error when splitting files using mm10
atacseqqc atac-seq R bioconductor rsamtools
updated 5.8 years ago by ★ 4.0k • written 5.8 years ago by • 0
0
votes
1
reply
1.1k
views
RSAMTOOLS to analyse BED FILES
RSAMTOOLS BED-FILE
5.8 years ago r.mulder01 • 0
4
votes
3
replies
1.7k
views
Rsamtools summarizeOverlaps produces low counts
Rsamtools summarizeOverlaps RNA-seq
updated 5.9 years ago by 68k • written 5.9 years ago by ▴ 10
1
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2
replies
1.4k
views
Rsamtools/GenomicAlignments segmentation faults
Rsamtools GenomicAlignments
updated 5.9 years ago by 25k • written 5.9 years ago by ▴ 10
0
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1
reply
1.1k
views
Subsetting the bamfile by readlength and extracting the information about distribution the SNV across these reads length
Rsamtools
updated 5.9 years ago by 25k • written 5.9 years ago by ▴ 50
1
vote
6
replies
3.6k
views
Rsamtools pileup function
Rsamtools pileup number of reads
updated 6.0 years ago by 25k • written 6.0 years ago by ▴ 10
0
votes
2
replies
1.6k
views
Problem with scanBam functiuon in Rsamools
Rsamtools scanBAM
updated 6.1 years ago by 25k • written 6.1 years ago by • 0
0
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0
replies
1.6k
views
Rsamtools / rtracklayer creating csi index for BAM files
rsamtools rtracklayer
6.3 years ago ATpoint ★ 5.0k
5
votes
15
replies
2.8k
views
scanBam and countBam end prematurely under Windows 10
Rsamtools
updated 6.5 years ago by 16k • written 6.5 years ago by 53k
0
votes
1
reply
1.9k
views
Rsamtools: how to extract uniquely aligned single-end or paired-end by ScanbamParam
Rsamtools
updated 6.5 years ago by 25k • written 6.5 years ago by ▴ 90
0
votes
1
reply
1.4k
views
Error:package or namespace load failed for 'bumphunter': object "path" is not exported by namespace:Rsamtools
minfi bumphunter Rsamtools
6.6 years ago Boran Gao • 0
1
vote
8
replies
4.3k
views
How to use Rsamtool or GenomicAlignments to calculate RAN-seq read coverage curves
Rsamtools GenomicAlignments RNA-seq coverage score
updated 6.7 years ago by 16k • written 6.7 years ago by ▴ 90
1
vote
1
reply
1.7k
views
Excluding reads with a certain tag using tagFilter from Rsamtools
rsamtools
updated 6.8 years ago by 25k • written 6.8 years ago by ▴ 140
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Thanks both for this useful information.
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SNPlocs.Hsapiens.dbSNP155.GRCh38 is available for download from the same location as always. It has not changed since Bioc 3.20: Presumabl…
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Do I map probes to gene symbols BEFORE or AFTER differentially expressed gene analysis?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Comment: Can sample-level weights be used when analysing GSVA scores in limma?
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