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<prev • 39 results • page 1 of 2 • next >
19
votes
2
answers
6.2k
views
5 follow
2
answers
Going From Cigar String In Sam To Genomic Coordinates?
cigar alignment sam parsing written 8.2 years ago by User 9996 • 770 • updated 8 days ago by Ram ♦ 17k
3
votes
0
answers
216
views
0
answers
SAM CIGAR parsing and position counter in R
cigar parsing sam R written 4 months ago by niu.shengyong • 30
5
votes
2
answers
227
views
2
answers
How to convert from a cigar string to extended cigar string?
extended cigar cigar c++ sam bam written 4 months ago by omariqbal2017 • 0 • updated 4 months ago by genomax ♦ 55k
8
votes
2
answers
295
views
2
answers
When Hard clipping is used instead of the Soft clipping ?
clipping cigar hard clipping written 4 months ago by 2012secondseason • 10 • updated 4 months ago by Devon Ryan ♦ 84k
2
votes
1
answer
179
views
1
answer
In CIGAR table, what does P operation mean?
cigar silent deletion padding written 5 months ago by 2012secondseason • 10 • updated 5 months ago by Pierre Lindenbaum ♦ 112k
2
votes
3
answers
196
views
3
answers
What's the difference between 'clipping' and 'unmapped' and 'skipped'?
tablet alignment cigar written 5 months ago by 2012secondseason • 10 • updated 5 months ago by Zhixue • 0
4
votes
1
answer
219
views
1
answer
How can overlap with paired end sequence??
cigar paired end alignment tablet written 5 months ago by 2012secondseason • 10 • updated 5 months ago by d-cameron • 1.9k
3
votes
1
answer
253
views
1
answer
extract all the cigar sequences
cigar written 6 months ago by KVC_bioinfo • 320 • updated 6 months ago by cschu181 • 1.4k
3
votes
2
answers
1.8k
views
2
answers
Cigar And Md String Do Not Match In Bowtie 0.12.8
cigar bowtie written 6.0 years ago by jeremy • 80 • updated 8 months ago by Rubus Pi • 0
4
votes
1
answer
398
views
1
answer
CIGAR operations performed according to strand or to read?
sequencing read format sam cigar written 9 months ago by Macspider • 2.5k • updated 9 months ago by h.mon ♦ 19k
2
votes
0
answers
444
views
0
answers
Getting genomic locations from cigar string
cigar python written 9 months ago by KVC_bioinfo • 320
4
votes
2
answers
557
views
7 follow
2
answers
filter BAM file for reads that map 100% identity
cigar bam samtools written 9 months ago by oriolebaltimore • 60 • updated 9 months ago by h.mon ♦ 19k
6
votes
2
answers
6.0k
views
5 follow
2
answers
Extracting Reads Containing A Specific Variant From A Bam File
cigar format sam bam written 4.9 years ago by Nick Stoler • 60 • updated 11 months ago by Biostar ♦♦ 20
4
votes
1
answer
802
views
1
answer
Mismatch on first base gives wrong TSS
cigar first-base mismatch clip-mismatch cage written 19 months ago by Chirag Nepal • 2.1k • updated 17 months ago by Charles Plessy • 2.5k
13
votes
2
answers
944
views
7 follow
2
answers
How to convert extended CIGAR to regular CIGAR
cigar bam sam written 19 months ago by artemd • 10 • updated 19 months ago by Pierre Lindenbaum ♦ 112k
8
votes
1
answer
861
views
1
answer
Splitting SAM/BAM alignments
cigar bam sam htslib written 22 months ago by Zev.Kronenberg ♦ 11k • updated 22 months ago by Pierre Lindenbaum ♦ 112k
0
votes
0
answers
517
views
0
answers
multiple Alignment Form
multiple alignment cigar alignment form written 22 months ago by midox • 190
8
votes
1
answer
6.9k
views
11 follow
1
answer
Samtools Filter Reads Cigar Field
cigar samtools written 5.1 years ago by dfernan • 640 • updated 2.3 years ago by Biostar ♦♦ 20
5
votes
1
answer
1.9k
views
1
answer
How does a skipped region from a CIGAR string (N) look in the alignment?
cigar alignment written 3.3 years ago by Niek De Klein • 2.4k • updated 3.3 years ago by Devon Ryan ♦ 84k
17
votes
2
answers
5.8k
views
6 follow
2
answers
In Cigar String, What Is The Difference Between 'N' And 'D' ?
cigar bam sam written 4.5 years ago by Chen • 700 • updated 3.3 years ago by amblina • 70
0
votes
1
answer
1.0k
views
1
answer
Using CIGAR match operators
cigar sam written 3.4 years ago by mikhail.shugay ♦ 3.3k • updated 3.4 years ago by Brian Bushnell ♦ 15k
5
votes
1
answer
2.3k
views
1
answer
CIGAR M operator maps off end of reference
exome cigar written 3.9 years ago by Chirag Nepal • 2.1k • updated 3.9 years ago by smilefreak • 400
32
votes
2
answers
4.3k
views
6 follow
2
answers
Is it possible to reconstruct alignment from CIGAR and MD strings alone?
cigar alignment rna-seq written 4.0 years ago by Lynxoid • 210 • updated 4.0 years ago by Istvan Albert ♦♦ 77k
2
votes
1
answer
2.5k
views
1
answer
Why "No real operator (M|I|D|N)" in picard?
cigar picard written 4.2 years ago by dariober ♦ 9.4k • updated 4.2 years ago by Pierre Lindenbaum ♦ 112k
0
votes
0
answers
1.0k
views
0
answers
Missing Cigar In Sam Output (Cushaw2)
cigar sam written 4.8 years ago by stolarek.ir • 550 • updated 4.3 years ago by Biostar ♦♦ 20
3
votes
0
answers
3.9k
views
5 follow
0
answers
Cigar And Sequence Length Inconsistent
sequence cigar length samtools written 6.2 years ago by Bnfoguy • 70 • updated 4.5 years ago by Biostar ♦♦ 20
5
votes
2
answers
3.6k
views
2
answers
Reconstructing Alignments From Cigar Strings
cigar alignment multiple written 6.6 years ago by Revh • 60 • updated 4.6 years ago by Biostar ♦♦ 20
6
votes
2
answers
2.0k
views
5 follow
2
answers
Cigar String - Are Soft Clipped Reads Only Ever At The Start Or End?
cigar written 4.8 years ago by Clare • 120 • updated 4.8 years ago by Ashutosh Pandey ♦ 11k
3
votes
1
answer
1.9k
views
1
answer
Interpreting "*" In Extended Cigar Format
cigar alignment samtools bwa written 5.1 years ago by anand.sarwate • 10
2
votes
1
answer
2.7k
views
1
answer
How To Filter Out Reads With A Bad Cigar M Operator
cigar picard samtools bam written 5.2 years ago by munch • 300 • updated 5.2 years ago by KCC • 3.9k
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