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<prev • 39 results • page 1 of 2 • next >
3
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129
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SAM CIGAR parsing and position counter in R
cigar parsing sam R written 6 weeks ago by niu.shengyong • 30
5
votes
2
answers
155
views
2
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How to convert from a cigar string to extended cigar string?
extended cigar cigar c++ sam bam written 7 weeks ago by omariqbal2017 • 0 • updated 7 weeks ago by genomax ♦ 49k
8
votes
2
answers
167
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2
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When Hard clipping is used instead of the Soft clipping ?
clipping cigar hard clipping written 8 weeks ago by 2012secondseason • 10 • updated 8 weeks ago by Devon Ryan ♦ 81k
2
votes
1
answer
121
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1
answer
In CIGAR table, what does P operation mean?
cigar silent deletion padding written 10 weeks ago by 2012secondseason • 10 • updated 10 weeks ago by Pierre Lindenbaum ♦ 108k
2
votes
3
answers
159
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3
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What's the difference between 'clipping' and 'unmapped' and 'skipped'?
tablet alignment cigar written 11 weeks ago by 2012secondseason • 10 • updated 11 weeks ago by Zhixue • 0
4
votes
1
answer
161
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1
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How can overlap with paired end sequence??
cigar paired end alignment tablet written 11 weeks ago by 2012secondseason • 10 • updated 11 weeks ago by d-cameron • 1.8k
3
votes
1
answer
181
views
1
answer
extract all the cigar sequences
cigar written 3 months ago by KVC_bioinfo • 310 • updated 3 months ago by cschu181 • 1.2k
3
votes
2
answers
1.7k
views
2
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Cigar And Md String Do Not Match In Bowtie 0.12.8
cigar bowtie written 5.8 years ago by jeremy • 80 • updated 5 months ago by Rubus Pi • 0
4
votes
1
answer
303
views
1
answer
CIGAR operations performed according to strand or to read?
sequencing read format sam cigar written 6 months ago by Macspider • 2.4k • updated 6 months ago by h.mon ♦ 15k
2
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0
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366
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0
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Getting genomic locations from cigar string
cigar python written 6 months ago by KVC_bioinfo • 310
4
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2
answers
428
views
7 follow
2
answers
filter BAM file for reads that map 100% identity
cigar bam samtools written 6 months ago by oriolebaltimore • 60 • updated 6 months ago by h.mon ♦ 15k
5
votes
2
answers
5.7k
views
2
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Extracting Reads Containing A Specific Variant From A Bam File
cigar format sam bam written 4.6 years ago by Nick Stoler • 60 • updated 8 months ago by Biostar ♦♦ 20
4
votes
1
answer
698
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1
answer
Mismatch on first base gives wrong TSS
cigar first-base mismatch clip-mismatch cage written 16 months ago by Chirag Nepal • 2.1k • updated 14 months ago by Charles Plessy • 2.5k
10
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2
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829
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6 follow
2
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How to convert extended CIGAR to regular CIGAR
cigar bam sam written 16 months ago by artemd • 10 • updated 16 months ago by Pierre Lindenbaum ♦ 108k
8
votes
1
answer
785
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1
answer
Splitting SAM/BAM alignments
cigar bam sam htslib written 19 months ago by Zev.Kronenberg ♦ 11k • updated 19 months ago by Pierre Lindenbaum ♦ 108k
0
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0
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437
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0
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multiple Alignment Form
multiple alignment cigar alignment form written 19 months ago by midox • 190
8
votes
1
answer
6.6k
views
11 follow
1
answer
Samtools Filter Reads Cigar Field
cigar samtools written 4.8 years ago by dfernan • 630 • updated 2.1 years ago by Biostar ♦♦ 20
5
votes
1
answer
1.8k
views
1
answer
How does a skipped region from a CIGAR string (N) look in the alignment?
cigar alignment written 3.1 years ago by Niek De Klein • 2.4k • updated 3.1 years ago by Devon Ryan ♦ 81k
14
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2
answers
5.4k
views
6 follow
2
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In Cigar String, What Is The Difference Between 'N' And 'D' ?
cigar bam sam written 4.2 years ago by Chen • 670 • updated 3.1 years ago by amblina • 60
0
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1
answer
957
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1
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Using CIGAR match operators
cigar sam written 3.2 years ago by mikhail.shugay ♦ 3.3k • updated 3.2 years ago by Brian Bushnell ♦ 15k
5
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1
answer
2.1k
views
1
answer
CIGAR M operator maps off end of reference
exome cigar written 3.7 years ago by Chirag Nepal • 2.1k • updated 3.7 years ago by smilefreak • 400
30
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2
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4.1k
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 3.8 years ago by Lynxoid • 210 • updated 3.8 years ago by Istvan Albert ♦♦ 77k
2
votes
1
answer
2.4k
views
1
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Why "No real operator (M|I|D|N)" in picard?
cigar picard written 4.0 years ago by dariober ♦ 9.2k • updated 4.0 years ago by Pierre Lindenbaum ♦ 108k
0
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960
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Missing Cigar In Sam Output (Cushaw2)
cigar sam written 4.5 years ago by stolarek.ir • 550 • updated 4.0 years ago by Biostar ♦♦ 20
3
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0
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3.8k
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5 follow
0
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Cigar And Sequence Length Inconsistent
sequence cigar length samtools written 6.0 years ago by Bnfoguy • 70 • updated 4.3 years ago by Biostar ♦♦ 20
5
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2
answers
3.4k
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2
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Reconstructing Alignments From Cigar Strings
cigar alignment multiple written 6.3 years ago by Revh • 60 • updated 4.4 years ago by Biostar ♦♦ 20
6
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2
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1.9k
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5 follow
2
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Cigar String - Are Soft Clipped Reads Only Ever At The Start Or End?
cigar written 4.6 years ago by Clare • 120 • updated 4.6 years ago by Ashutosh Pandey ♦ 11k
3
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1
answer
1.8k
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1
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Interpreting "*" In Extended Cigar Format
cigar alignment samtools bwa written 4.8 years ago by anand.sarwate • 10
2
votes
1
answer
2.6k
views
1
answer
How To Filter Out Reads With A Bad Cigar M Operator
cigar picard samtools bam written 5.0 years ago by munch • 300 • updated 5.0 years ago by KCC • 3.9k
2
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2
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5.9k
views
2
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Python Cigar String - Finding Indels Break Points Positions
cigar written 5.0 years ago by stolarek.ir • 550
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