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Showing: cigar • reset
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<prev • 41 results • page 1 of 2 • next >
2
votes
1
answer
96
views
1
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Filtering noise out of SAM file using CIGAR
cigar sam written 13 days ago by blur • 90 • updated 13 days ago by Carambakaracho • 620
2
votes
1
answer
213
views
1
answer
Get sequences from a BAM file as strings spaced out as described by cigar
R alignment genomicalignments bam cigar written 4 weeks ago by yesitsjess • 0 • updated 4 weeks ago by Matt Shirley ♦ 8.7k
19
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2
answers
6.4k
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5 follow
2
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Going From Cigar String In Sam To Genomic Coordinates?
cigar alignment sam parsing written 8.4 years ago by User 9996 • 790 • updated 3 months ago by RamRS ♦ 19k
3
votes
0
answers
316
views
0
answers
SAM CIGAR parsing and position counter in R
cigar parsing sam R written 7 months ago by niu.shengyong • 30
6
votes
2
answers
381
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2
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How to convert from a cigar string to extended cigar string?
extended cigar cigar c++ sam bam written 7 months ago by omariqbal2017 • 0 • updated 7 months ago by genomax ♦ 59k
8
votes
2
answers
456
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2
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When Hard clipping is used instead of the Soft clipping ?
clipping cigar hard clipping written 7 months ago by 2012secondseason • 10 • updated 7 months ago by Devon Ryan ♦ 86k
2
votes
1
answer
253
views
1
answer
In CIGAR table, what does P operation mean?
cigar silent deletion padding written 8 months ago by 2012secondseason • 10 • updated 8 months ago by Pierre Lindenbaum ♦ 115k
2
votes
3
answers
237
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3
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What's the difference between 'clipping' and 'unmapped' and 'skipped'?
tablet alignment cigar written 8 months ago by 2012secondseason • 10 • updated 8 months ago by Zhixue • 10
4
votes
1
answer
262
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1
answer
How can overlap with paired end sequence??
cigar paired end alignment tablet written 8 months ago by 2012secondseason • 10 • updated 8 months ago by d-cameron • 1.9k
3
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1
answer
341
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1
answer
extract all the cigar sequences
cigar written 9 months ago by KVC_bioinfo • 350 • updated 9 months ago by cschu181 • 1.4k
3
votes
2
answers
1.9k
views
2
answers
Cigar And Md String Do Not Match In Bowtie 0.12.8
cigar bowtie written 6.2 years ago by jeremy • 80 • updated 11 months ago by Rubus Pi • 0
4
votes
1
answer
492
views
1
answer
CIGAR operations performed according to strand or to read?
sequencing read format sam cigar written 12 months ago by Macspider • 2.6k • updated 12 months ago by h.mon ♦ 21k
2
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0
answers
533
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0
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Getting genomic locations from cigar string
cigar python written 12 months ago by KVC_bioinfo • 350
4
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2
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674
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7 follow
2
answers
filter BAM file for reads that map 100% identity
cigar bam samtools written 12 months ago by oriolebaltimore • 60 • updated 12 months ago by h.mon ♦ 21k
6
votes
2
answers
6.4k
views
5 follow
2
answers
Extracting Reads Containing A Specific Variant From A Bam File
cigar format sam bam written 5.1 years ago by Nick Stoler • 60 • updated 14 months ago by Biostar ♦♦ 20
4
votes
1
answer
874
views
1
answer
Mismatch on first base gives wrong TSS
cigar first-base mismatch clip-mismatch cage written 22 months ago by Chirag Nepal • 2.1k • updated 19 months ago by Charles Plessy • 2.6k
13
votes
2
answers
1.1k
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7 follow
2
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How to convert extended CIGAR to regular CIGAR
cigar bam sam written 22 months ago by artemd • 10 • updated 22 months ago by Pierre Lindenbaum ♦ 115k
8
votes
1
answer
935
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1
answer
Splitting SAM/BAM alignments
cigar bam sam htslib written 2.0 years ago by Zev.Kronenberg ♦ 11k • updated 2.0 years ago by Pierre Lindenbaum ♦ 115k
0
votes
0
answers
549
views
0
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multiple Alignment Form
multiple alignment cigar alignment form written 2.1 years ago by midox • 200
8
votes
1
answer
7.2k
views
11 follow
1
answer
Samtools Filter Reads Cigar Field
cigar samtools written 5.3 years ago by dfernan • 640 • updated 2.6 years ago by Biostar ♦♦ 20
5
votes
1
answer
2.0k
views
1
answer
How does a skipped region from a CIGAR string (N) look in the alignment?
cigar alignment written 3.5 years ago by Niek De Klein • 2.4k • updated 3.5 years ago by Devon Ryan ♦ 86k
17
votes
2
answers
6.2k
views
6 follow
2
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In Cigar String, What Is The Difference Between 'N' And 'D' ?
cigar bam sam written 4.7 years ago by Chen • 760 • updated 3.6 years ago by amblina • 70
0
votes
1
answer
1.0k
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1
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Using CIGAR match operators
cigar sam written 3.7 years ago by mikhail.shugay ♦ 3.3k • updated 3.7 years ago by Brian Bushnell ♦ 16k
5
votes
1
answer
2.4k
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1
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CIGAR M operator maps off end of reference
exome cigar written 4.1 years ago by Chirag Nepal • 2.1k • updated 4.1 years ago by smilefreak • 400
32
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2
answers
4.5k
views
6 follow
2
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Is it possible to reconstruct alignment from CIGAR and MD strings alone?
cigar alignment rna-seq written 4.2 years ago by Lynxoid • 220 • updated 4.2 years ago by Istvan Albert ♦♦ 78k
2
votes
1
answer
2.6k
views
1
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Why "No real operator (M|I|D|N)" in picard?
cigar picard written 4.5 years ago by dariober ♦ 9.7k • updated 4.5 years ago by Pierre Lindenbaum ♦ 115k
0
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0
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1.1k
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0
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Missing Cigar In Sam Output (Cushaw2)
cigar sam written 5.0 years ago by stolarek.ir • 550 • updated 4.5 years ago by Biostar ♦♦ 20
3
votes
0
answers
4.1k
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5 follow
0
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Cigar And Sequence Length Inconsistent
sequence cigar length samtools written 6.5 years ago by Bnfoguy • 70 • updated 4.7 years ago by Biostar ♦♦ 20
5
votes
2
answers
3.7k
views
2
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Reconstructing Alignments From Cigar Strings
cigar alignment multiple written 6.8 years ago by Revh • 60 • updated 4.8 years ago by Biostar ♦♦ 20
6
votes
2
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2.1k
views
5 follow
2
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Cigar String - Are Soft Clipped Reads Only Ever At The Start Or End?
cigar written 5.1 years ago by Clare • 120 • updated 5.1 years ago by Ashutosh Pandey ♦ 11k
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