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4
votes
1
answer
153
views
1
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Calculate average mapping quality at a position
mapping quality mpileup written 7 days ago by hpapoli • 60 • updated 7 days ago by Gabriel R. • 2.5k
4
votes
0
answers
2.0k
views
0
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BWA-mem MAPQ Calculation
mq bwa-mem mapping quality mapq alignment written 2.1 years ago by rfriedman22 • 40 • updated 29 days ago by h.mon ♦ 18k
0
votes
0
answers
375
views
0
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which indel to consider
exome mapping quality indel calls cigar value written 14 months ago by Kritika • 250 • updated 14 months ago by Pierre Lindenbaum ♦ 111k
12
votes
4
answers
3.1k
views
4
answers
How to select aligned reads below certain mapping Quality (from BWA)?
alignment samtools mapping quality bam bwa written 23 months ago by kirannbishwa01 • 830
4
votes
0
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2.9k
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0
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All the reads aligned using STAR have low mapping quality (0-3). What is happening?
alignment mapping quality bwa star written 2.1 years ago by kirannbishwa01 • 830
1
vote
1
answer
1.0k
views
1
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What is the difference between the "match score", the mapping quality score under the tmap mapping pipeline
mapping quality match score tmap alignment score written 2.7 years ago by BioinfoNovice • 90 • updated 2.7 years ago by Ram ♦ 17k
6
votes
1
answer
1.2k
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1
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Why does BWA give different Mapping Quality to identical reads?
alignment mapping quality bwa written 3.3 years ago by Asdp • 40 • updated 3.3 years ago by matted ♦ 6.8k
0
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0
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1.8k
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0
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Samtools : what is threshold for the mapping quality?
next-gen samtools mapping quality snp written 3.6 years ago by Govardhan Anande • 130 • updated 3.6 years ago by Biostar ♦♦ 20
3
votes
1
answer
1.6k
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1
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Remove both pair end reads with low mapping quality using Samtools
mapping quality samtools written 3.7 years ago by DVA • 470 • updated 3.7 years ago by Devon Ryan ♦ 82k
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